Macf1 (microtubule-actin crosslinking factor 1) - Rat Genome Database

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Gene: Macf1 (microtubule-actin crosslinking factor 1) Rattus norvegicus
Analyze
Symbol: Macf1
Name: microtubule-actin crosslinking factor 1
RGD ID: 1306057
Description: Predicted to enable actin filament binding activity; microtubule minus-end binding activity; and structural molecule activity. Involved in positive regulation of Wnt signaling pathway. Located in membrane. Human ortholog(s) of this gene implicated in lissencephaly 9 with complex brainstem malformation. Orthologous to human MACF1 (microtubule actin crosslinking factor 1); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: actin cross-linking family 7; LOC298511; LOC362587; microtubule-actin cross-linking factor 1; similar to microfilament and actin filament cross-linker protein isoform b
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25135,623,729 - 135,949,097 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5135,623,742 - 135,945,905 (-)Ensembl
Rnor_6.05141,039,455 - 141,363,524 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5141,039,468 - 141,363,524 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05144,829,588 - 145,151,477 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45142,659,726 - 142,986,873 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15142,667,739 - 142,701,960 (-)NCBI
Celera5134,162,059 - 134,482,913 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-hydroxypropanoic acid  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-fluorouracil  (ISO)
acrolein  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amphetamine  (EXP)
antimycin A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
carbon nanotube  (ISO)
cisplatin  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
emodin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
etoposide  (ISO)
folic acid  (ISO)
hydrogen peroxide  (ISO)
indometacin  (ISO)
ivermectin  (ISO)
lead diacetate  (ISO)
maneb  (ISO)
methamphetamine  (ISO)
methylmercury chloride  (ISO)
microcystin RR  (ISO)
naphthalene  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
phosgene  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
rac-lactic acid  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
testosterone enanthate  (ISO)
thapsigargin  (ISO)
topotecan  (EXP,ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vincristine  (ISO)
vitamin E  (ISO)
xylitol  (ISO)
zinc protoporphyrin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
actin cytoskeleton  (IBA,ISO)
cell junction  (ISO)
cell projection  (IEA)
cytoplasm  (IBA,IEA,ISO,ISS)
Golgi apparatus  (ISO,ISS)
intermediate filament  (IBA)
membrane  (IBA,IDA,IEA)
microtubule  (IBA,IEA,ISO,ISS)
microtubule cytoskeleton  (ISO)
plasma membrane  (ISO,ISS)
postsynaptic density  (ISO)
ruffle membrane  (ISO,ISS)

Molecular Function

References

Additional References at PubMed
PMID:10559237   PMID:14636561   PMID:15265687   PMID:16076900   PMID:17114649   PMID:18854161   PMID:20937854   PMID:21295697   PMID:22496866   PMID:22681889   PMID:22705394   PMID:25468996  
PMID:26526844   PMID:27693509   PMID:29476059  


Genomics

Comparative Map Data
Macf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25135,623,729 - 135,949,097 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5135,623,742 - 135,945,905 (-)Ensembl
Rnor_6.05141,039,455 - 141,363,524 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5141,039,468 - 141,363,524 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05144,829,588 - 145,151,477 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45142,659,726 - 142,986,873 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15142,667,739 - 142,701,960 (-)NCBI
Celera5134,162,059 - 134,482,913 (-)NCBICelera
Cytogenetic Map5q36NCBI
MACF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl139,081,316 - 39,487,177 (+)EnsemblGRCh38hg38GRCh38
GRCh38139,084,167 - 39,487,138 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37139,549,839 - 39,952,810 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36139,319,705 - 39,725,376 (+)NCBINCBI36hg18NCBI36
Build 34139,465,902 - 39,621,882NCBI
Celera137,828,167 - 38,234,164 (+)NCBI
Cytogenetic Map1p34.3NCBI
HuRef137,669,045 - 38,071,866 (+)NCBIHuRef
CHM1_1139,665,458 - 40,068,698 (+)NCBICHM1_1
Macf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394123,243,426 - 123,581,594 (-)NCBIGRCm39mm39
GRCm39 Ensembl4123,243,426 - 123,578,153 (-)Ensembl
GRCm384123,349,633 - 123,687,802 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4123,349,633 - 123,684,360 (-)EnsemblGRCm38mm10GRCm38
MGSCv374123,026,959 - 123,361,603 (-)NCBIGRCm37mm9NCBIm37
MGSCv364122,851,896 - 123,186,492 (-)NCBImm8
Celera4121,682,320 - 122,018,135 (-)NCBICelera
Cytogenetic Map4D2.2NCBI
cM Map457.42NCBI
Macf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545216,798,911 - 17,024,732 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545216,684,784 - 17,025,940 (+)NCBIChiLan1.0ChiLan1.0
MACF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1139,820,066 - 40,097,748 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl139,820,394 - 40,096,558 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0138,369,021 - 38,771,911 (+)NCBIMhudiblu_PPA_v0panPan3
Macf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505855,228,978 - 55,576,554 (+)NCBI
SpeTri2.0NW_00493647421,053,755 - 21,401,336 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MACF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl694,960,457 - 95,317,145 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1694,960,385 - 95,318,126 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2688,111,268 - 88,403,214 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MACF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12093,413,111 - 93,814,388 (-)NCBI
Vero_WHO_p1.0NW_02366603323,023,831 - 23,431,976 (+)NCBI
Macf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476421,663,516 - 22,015,866 (+)NCBI

Position Markers
SHGC-74638  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25135,623,891 - 135,624,057 (+)MAPPERmRatBN7.2
Rnor_6.05141,039,618 - 141,039,783NCBIRnor6.0
Rnor_5.05144,829,751 - 144,829,916UniSTSRnor5.0
RGSC_v3.45142,659,889 - 142,660,054UniSTSRGSC3.4
Celera5134,162,222 - 134,162,387UniSTS
Cytogenetic Map5q36UniSTS
RH131646  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25135,624,798 - 135,624,990 (+)MAPPERmRatBN7.2
Rnor_6.05141,040,525 - 141,040,716NCBIRnor6.0
Rnor_5.05144,830,658 - 144,830,849UniSTSRnor5.0
RGSC_v3.45142,660,796 - 142,660,987UniSTSRGSC3.4
Celera5134,163,129 - 134,163,320UniSTS
RH 3.4 Map5890.4UniSTS
Cytogenetic Map5q36UniSTS
RH133884  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25135,888,620 - 135,888,807 (+)MAPPERmRatBN7.2
Rnor_6.05141,304,136 - 141,304,322NCBIRnor6.0
Rnor_5.05145,095,060 - 145,095,246UniSTSRnor5.0
RGSC_v3.45142,924,407 - 142,924,593UniSTSRGSC3.4
Celera5134,426,150 - 134,426,336UniSTS
RH 3.4 Map5890.4UniSTS
Cytogenetic Map5q36UniSTS
AA858740  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25135,623,979 - 135,624,193 (+)MAPPERmRatBN7.2
Rnor_6.05141,039,706 - 141,039,919NCBIRnor6.0
Rnor_5.05144,829,839 - 144,830,052UniSTSRnor5.0
RGSC_v3.45142,659,977 - 142,660,190UniSTSRGSC3.4
Celera5134,162,310 - 134,162,523UniSTS
RH 3.4 Map5890.2UniSTS
Cytogenetic Map5q36UniSTS
BQ193041  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25135,808,810 - 135,808,973 (+)MAPPERmRatBN7.2
Rnor_6.05141,224,527 - 141,224,689NCBIRnor6.0
Rnor_5.05145,014,937 - 145,015,099UniSTSRnor5.0
RGSC_v3.45142,844,798 - 142,844,960UniSTSRGSC3.4
Celera5134,347,189 - 134,347,351UniSTS
RH 3.4 Map5875.0UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5129132428143070159Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5120740824143608494Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
1300122Wbc1White blood cell count QTL 12.75leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)5125392826139989768Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)597570330136479578Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
7411722Strs6Sensitivity to stroke QTL 63.9cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)5134972980138113556Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:108
Count of miRNA genes:97
Interacting mature miRNAs:97
Transcripts:ENSRNOT00000045400
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 2
Medium 2 42 36 20 19 20 8 8 74 35 39 9 8
Low 1 1 21 21 21 3 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001135758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593497 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110314 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110322 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110329 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110331 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110333 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110335 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC114512 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC131172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232874 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000045400   ⟹   ENSRNOP00000041065
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,931,525 (-)Ensembl
Rnor_6.0 Ensembl5141,040,752 - 141,229,781 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081482   ⟹   ENSRNOP00000075119
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,877,039 (-)Ensembl
Rnor_6.0 Ensembl5141,039,587 - 141,242,131 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084109   ⟹   ENSRNOP00000069807
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,945,905 (-)Ensembl
Rnor_6.0 Ensembl5141,039,468 - 141,363,524 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000091828   ⟹   ENSRNOP00000069001
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,791,601 (-)Ensembl
Rnor_6.0 Ensembl5141,040,752 - 141,229,781 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099669   ⟹   ENSRNOP00000082051
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,945,905 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101846   ⟹   ENSRNOP00000084588
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,836,582 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103325   ⟹   ENSRNOP00000077375
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,827,062 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104350   ⟹   ENSRNOP00000096978
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,931,525 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113796   ⟹   ENSRNOP00000095347
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,945,905 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120102   ⟹   ENSRNOP00000088940
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5135,623,742 - 135,931,525 (-)Ensembl
RefSeq Acc Id: NM_001135758   ⟹   NP_001129230
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,729 - 135,945,905 (-)NCBI
Rnor_6.05141,039,455 - 141,363,524 (-)NCBI
Rnor_5.05144,829,588 - 145,151,477 (-)NCBI
RGSC_v3.45142,659,726 - 142,986,873 (-)RGD
Celera5134,162,059 - 134,482,913 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593499   ⟹   XP_017448988
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,881,073 (-)NCBI
Rnor_6.05141,039,481 - 141,295,991 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593500   ⟹   XP_017448989
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,827,812 (-)NCBI
Rnor_6.05141,039,481 - 141,244,590 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593501   ⟹   XP_017448990
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,625,026 - 135,945,737 (-)NCBI
Rnor_6.05141,039,481 - 141,363,408 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593503   ⟹   XP_017448992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,625,026 - 135,945,737 (-)NCBI
Rnor_6.05141,039,481 - 141,363,408 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039110310   ⟹   XP_038966238
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,316 (-)NCBI
RefSeq Acc Id: XM_039110311   ⟹   XP_038966239
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,316 (-)NCBI
RefSeq Acc Id: XM_039110312   ⟹   XP_038966240
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,316 (-)NCBI
RefSeq Acc Id: XM_039110313   ⟹   XP_038966241
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,317 (-)NCBI
RefSeq Acc Id: XM_039110314   ⟹   XP_038966242
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,315 (-)NCBI
RefSeq Acc Id: XM_039110315   ⟹   XP_038966243
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,316 (-)NCBI
RefSeq Acc Id: XM_039110317   ⟹   XP_038966245
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,315 (-)NCBI
RefSeq Acc Id: XM_039110318   ⟹   XP_038966246
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,316 (-)NCBI
RefSeq Acc Id: XM_039110319   ⟹   XP_038966247
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,315 (-)NCBI
RefSeq Acc Id: XM_039110320   ⟹   XP_038966248
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,314 (-)NCBI
RefSeq Acc Id: XM_039110321   ⟹   XP_038966249
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,315 (-)NCBI
RefSeq Acc Id: XM_039110322   ⟹   XP_038966250
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,314 (-)NCBI
RefSeq Acc Id: XM_039110323   ⟹   XP_038966251
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,315 (-)NCBI
RefSeq Acc Id: XM_039110324   ⟹   XP_038966252
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,314 (-)NCBI
RefSeq Acc Id: XM_039110325   ⟹   XP_038966253
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,625,026 - 135,791,313 (-)NCBI
RefSeq Acc Id: XM_039110326   ⟹   XP_038966254
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,314 (-)NCBI
RefSeq Acc Id: XM_039110328   ⟹   XP_038966256
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,317 (-)NCBI
RefSeq Acc Id: XM_039110329   ⟹   XP_038966257
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,317 (-)NCBI
RefSeq Acc Id: XM_039110330   ⟹   XP_038966258
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,949,097 (-)NCBI
RefSeq Acc Id: XM_039110331   ⟹   XP_038966259
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,949,097 (-)NCBI
RefSeq Acc Id: XM_039110332   ⟹   XP_038966260
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,836,061 (-)NCBI
RefSeq Acc Id: XM_039110333   ⟹   XP_038966261
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,926,702 (-)NCBI
RefSeq Acc Id: XM_039110334   ⟹   XP_038966262
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,826,692 (-)NCBI
RefSeq Acc Id: XM_039110335   ⟹   XP_038966263
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,791,304 (-)NCBI
RefSeq Acc Id: XM_039110336   ⟹   XP_038966264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,625,026 - 135,949,097 (-)NCBI
RefSeq Acc Id: XM_039110337   ⟹   XP_038966265
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,949,097 (-)NCBI
RefSeq Acc Id: XM_039110338   ⟹   XP_038966266
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,949,097 (-)NCBI
RefSeq Acc Id: XM_039110339   ⟹   XP_038966267
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,949,097 (-)NCBI
RefSeq Acc Id: XM_039110340   ⟹   XP_038966268
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,949,097 (-)NCBI
RefSeq Acc Id: XM_039110341   ⟹   XP_038966269
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25135,623,734 - 135,949,097 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001129230 (Get FASTA)   NCBI Sequence Viewer  
  XP_017448988 (Get FASTA)   NCBI Sequence Viewer  
  XP_017448989 (Get FASTA)   NCBI Sequence Viewer  
  XP_017448990 (Get FASTA)   NCBI Sequence Viewer  
  XP_017448992 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966238 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966239 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966240 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966241 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966242 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966243 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966245 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966246 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966247 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966248 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966249 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966250 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966251 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966252 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966253 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966254 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966256 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966257 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966258 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966259 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966260 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966261 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966262 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966263 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966264 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966265 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966266 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966267 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966268 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966269 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D3ZHV2 (Get FASTA)   NCBI Sequence Viewer  
  EDL80380 (Get FASTA)   NCBI Sequence Viewer  
  EDL80381 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001129230   ⟸   NM_001135758
- UniProtKB: A0A0G2JWA8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017448992   ⟸   XM_017593503
- Peptide Label: isoform X29
- Sequence:
RefSeq Acc Id: XP_017448990   ⟸   XM_017593501
- Peptide Label: isoform X27
- UniProtKB: D3ZHV2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017448988   ⟸   XM_017593499
- Peptide Label: isoform X24
- Sequence:
RefSeq Acc Id: XP_017448989   ⟸   XM_017593500
- Peptide Label: isoform X25
- Sequence:
RefSeq Acc Id: ENSRNOP00000041065   ⟸   ENSRNOT00000045400
RefSeq Acc Id: ENSRNOP00000075119   ⟸   ENSRNOT00000081482
RefSeq Acc Id: ENSRNOP00000069807   ⟸   ENSRNOT00000084109
RefSeq Acc Id: ENSRNOP00000069001   ⟸   ENSRNOT00000091828
RefSeq Acc Id: XP_038966267   ⟸   XM_039110339
- Peptide Label: isoform X32
RefSeq Acc Id: XP_038966269   ⟸   XM_039110341
- Peptide Label: isoform X34
RefSeq Acc Id: XP_038966268   ⟸   XM_039110340
- Peptide Label: isoform X33
RefSeq Acc Id: XP_038966259   ⟸   XM_039110331
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038966266   ⟸   XM_039110338
- Peptide Label: isoform X31
RefSeq Acc Id: XP_038966265   ⟸   XM_039110337
- Peptide Label: isoform X30
RefSeq Acc Id: XP_038966258   ⟸   XM_039110330
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038966261   ⟸   XM_039110333
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038966260   ⟸   XM_039110332
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038966262   ⟸   XM_039110334
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038966257   ⟸   XM_039110329
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038966256   ⟸   XM_039110328
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038966241   ⟸   XM_039110313
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038966240   ⟸   XM_039110312
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038966246   ⟸   XM_039110318
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038966239   ⟸   XM_039110311
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038966243   ⟸   XM_039110315
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038966238   ⟸   XM_039110310
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966245   ⟸   XM_039110317
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038966242   ⟸   XM_039110314
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038966249   ⟸   XM_039110321
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038966247   ⟸   XM_039110319
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038966251   ⟸   XM_039110323
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038966250   ⟸   XM_039110322
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038966248   ⟸   XM_039110320
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038966254   ⟸   XM_039110326
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038966252   ⟸   XM_039110324
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038966263   ⟸   XM_039110335
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038966264   ⟸   XM_039110336
- Peptide Label: isoform X28
RefSeq Acc Id: XP_038966253   ⟸   XM_039110325
- Peptide Label: isoform X15
RefSeq Acc Id: ENSRNOP00000082051   ⟸   ENSRNOT00000099669
RefSeq Acc Id: ENSRNOP00000096978   ⟸   ENSRNOT00000104350
RefSeq Acc Id: ENSRNOP00000088940   ⟸   ENSRNOT00000120102
RefSeq Acc Id: ENSRNOP00000077375   ⟸   ENSRNOT00000103325
RefSeq Acc Id: ENSRNOP00000095347   ⟸   ENSRNOT00000113796
RefSeq Acc Id: ENSRNOP00000084588   ⟸   ENSRNOT00000101846
Protein Domains
Calponin-homology (CH)   EF-hand   GAR   SH3

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13694015
Promoter ID:EPDNEW_R4529
Type:initiation region
Name:Macf1_1
Description:microtubule-actin crosslinking factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05141,242,058 - 141,242,118EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306057 AgrOrtholog
Ensembl Genes ENSRNOG00000016047 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000041065 UniProtKB/TrEMBL
  ENSRNOP00000069001 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069807 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075119 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045400 UniProtKB/TrEMBL
  ENSRNOT00000081482 UniProtKB/TrEMBL
  ENSRNOT00000084109 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000091828 UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.920.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.1290.10 UniProtKB/TrEMBL
InterPro Actinin_actin-bd_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CH-domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CH_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Desmoplakin_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Desmoplakin_Spectrin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GAR_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GAR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Plakin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Plakin_repeat_sf UniProtKB/TrEMBL
  Plectin_repeat UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spectrin/alpha-actinin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spectrin_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362587 UniProtKB/TrEMBL
NCBI Gene 362587 ENTREZGENE
PANTHER PTHR23169 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EF-hand_7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GAS2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00307 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Plectin UniProtKB/TrEMBL
  SH3_10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spectrin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spectrin_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Macf1 PhenoGen
PROSITE ACTININ_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ACTININ_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_HAND_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50021 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART EFh UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GAS2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLEC UniProtKB/TrEMBL
  SM00033 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SPEC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF143575 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF47576 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF75399 UniProtKB/TrEMBL
UniProt A0A0G2JU82_RAT UniProtKB/TrEMBL
  A0A0G2JWA8 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K9T4_RAT UniProtKB/TrEMBL
  D3ZHV2 ENTREZGENE
  M9MMM9_RAT UniProtKB/TrEMBL
  MACF1_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-01-20 Macf1  microtubule-actin crosslinking factor 1   LOC362587  similar to microfilament and actin filament cross-linker protein isoform b  Data Merged 737654 APPROVED
2008-04-30 Macf1  microtubule-actin crosslinking factor 1   Macf1_predicted  microtubule-actin crosslinking factor 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-19 LOC362587  similar to microfilament and actin filament cross-linker protein isoform b      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Macf1_predicted  microtubule-actin crosslinking factor 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED