Anks1b (ankyrin repeat and sterile alpha motif domain containing 1B) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Anks1b (ankyrin repeat and sterile alpha motif domain containing 1B) Rattus norvegicus
Analyze
Symbol: Anks1b
Name: ankyrin repeat and sterile alpha motif domain containing 1B
RGD ID: 1565556
Description: Predicted to have ephrin receptor binding activity. Involved in receptor localization to synapse. Localizes to several cellular components, including hippocampal mossy fiber to CA3 synapse; postsynaptic density, intracellular component; and presynaptic cytosol. Orthologous to human ANKS1B (ankyrin repeat and sterile alpha motif domain containing 1B); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: AIDA-1; amyloid-beta protein intracellular domain-associated protein 1; Ankyrin repeat and sterile alpha motif domain-containing protein 1B; E2A-PBX1-associated protein; EB-1; LOC314721; RGD1565556; similar to cajalin 2 isoform a
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0730,507,135 - 31,684,604 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl730,699,476 - 31,681,182 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0730,603,416 - 31,776,175 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4726,749,708 - 27,914,155 (+)NCBIRGSC3.4rn4RGSC3.4
Celera721,458,045 - 22,603,947 (+)NCBICelera
Cytogenetic Map7q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

Additional References at PubMed
PMID:15057822   PMID:15169875   PMID:17875921   PMID:22871113   PMID:24746365   PMID:26356309   PMID:27477489   PMID:29476059  


Genomics

Comparative Map Data
Anks1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0730,507,135 - 31,684,604 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl730,699,476 - 31,681,182 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0730,603,416 - 31,776,175 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4726,749,708 - 27,914,155 (+)NCBIRGSC3.4rn4RGSC3.4
Celera721,458,045 - 22,603,947 (+)NCBICelera
Cytogenetic Map7q13NCBI
ANKS1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1298,726,457 - 99,984,654 (-)EnsemblGRCh38hg38GRCh38
GRCh381298,729,904 - 99,984,936 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371299,128,569 - 100,378,512 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361297,653,202 - 98,902,563 (-)NCBINCBI36hg18NCBI36
Celera1298,793,966 - 100,043,704 (-)NCBI
Cytogenetic Map12q23.1NCBI
HuRef1296,189,664 - 97,280,648 (-)NCBIHuRef
CHM1_11299,093,509 - 100,344,110 (-)NCBICHM1_1
Anks1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391089,707,238 - 90,809,162 (+)NCBIGRCm39mm39
GRCm381089,872,915 - 90,973,300 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1089,873,509 - 90,973,300 (+)EnsemblGRCm38mm10GRCm38
MGSCv371089,336,254 - 90,435,730 (+)NCBIGRCm37mm9NCBIm37
MGSCv361089,302,828 - 90,403,103 (+)NCBImm8
Celera1091,877,745 - 92,966,422 (+)NCBICelera
Cytogenetic Map10C2NCBI
Anks1b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540534,700,551 - 35,775,960 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540534,701,613 - 35,776,076 (-)NCBIChiLan1.0ChiLan1.0
ANKS1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11299,736,914 - 100,968,737 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1299,737,252 - 100,968,475 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01296,313,293 - 97,559,597 (-)NCBIMhudiblu_PPA_v0panPan3
ANKS1B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1538,129,140 - 39,186,399 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11538,128,114 - 39,186,341 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Anks1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493649213,753,605 - 14,805,539 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ANKS1B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl584,080,666 - 85,166,486 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1584,080,505 - 85,148,742 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ANKS1B
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11194,027,310 - 95,286,415 (-)NCBI
Anks1b
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247507,871,694 - 8,829,475 (+)NCBI

Position Markers
D7Rat47  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,427,655 - 31,427,828NCBIRnor6.0
Rnor_5.0731,518,951 - 31,519,124UniSTSRnor5.0
RGSC_v3.4727,660,931 - 27,661,104RGDRGSC3.4
RGSC_v3.4727,660,932 - 27,661,105UniSTSRGSC3.4
RGSC_v3.1727,681,202 - 27,681,375RGD
Cytogenetic Map7q13UniSTS
RH 3.4 Map7148.5UniSTS
RH 3.4 Map7148.5RGD
RH 2.0 Map7141.7RGD
FHH x ACI Map77.4699RGD
D7Rat194  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,642,803 - 31,642,945NCBIRnor6.0
Rnor_5.0731,734,050 - 31,734,192UniSTSRnor5.0
RGSC_v3.4727,877,351 - 27,877,494RGDRGSC3.4
RGSC_v3.4727,877,352 - 27,877,494UniSTSRGSC3.4
RGSC_v3.1727,897,622 - 27,897,765RGD
Celera722,565,821 - 22,565,963UniSTS
Cytogenetic Map7q13UniSTS
FHH x ACI Map77.4699UniSTS
FHH x ACI Map77.4699RGD
D7Got16  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0730,903,969 - 30,904,405NCBIRnor6.0
Rnor_6.0730,904,249 - 30,904,405NCBIRnor6.0
Rnor_5.0731,001,207 - 31,001,643UniSTSRnor5.0
Rnor_5.0731,001,487 - 31,001,643UniSTSRnor5.0
RGSC_v3.4727,153,504 - 27,153,661RGDRGSC3.4
RGSC_v3.4727,153,505 - 27,153,661UniSTSRGSC3.4
RGSC_v3.1727,173,776 - 27,173,932RGD
Celera721,842,997 - 21,843,167UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7141.3RGD
RH 3.4 Map7141.3UniSTS
RH 2.0 Map7142.1RGD
BE102489  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,409,056 - 31,409,214NCBIRnor6.0
Rnor_5.0731,503,629 - 31,503,787UniSTSRnor5.0
RGSC_v3.4727,653,844 - 27,654,002UniSTSRGSC3.4
Celera722,343,404 - 22,343,562UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7147.1UniSTS
RH138629  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,232,859 - 31,233,007NCBIRnor6.0
Rnor_5.0731,327,432 - 31,327,580UniSTSRnor5.0
RGSC_v3.4727,474,547 - 27,474,695UniSTSRGSC3.4
Celera722,167,250 - 22,167,398UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7143.8UniSTS
RH144012  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,680,715 - 31,680,814NCBIRnor6.0
Rnor_5.0731,772,291 - 31,772,390UniSTSRnor5.0
RGSC_v3.4727,913,782 - 27,913,881UniSTSRGSC3.4
Celera722,601,672 - 22,601,771UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7153.9UniSTS
RH144380  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0730,507,738 - 30,507,908NCBIRnor6.0
Rnor_5.0730,604,019 - 30,604,189UniSTSRnor5.0
RGSC_v3.4726,750,311 - 26,750,481UniSTSRGSC3.4
Celera721,458,648 - 21,458,818UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7144.5UniSTS
RH144500  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,660,932 - 31,661,048NCBIRnor6.0
Rnor_5.0731,752,179 - 31,752,295UniSTSRnor5.0
RGSC_v3.4727,895,481 - 27,895,597UniSTSRGSC3.4
Celera722,584,008 - 22,584,124UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7152.6UniSTS
BF387129  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,411,790 - 31,411,940NCBIRnor6.0
Rnor_5.0731,506,363 - 31,506,513UniSTSRnor5.0
RGSC_v3.4727,656,578 - 27,656,728UniSTSRGSC3.4
Celera722,346,133 - 22,346,283UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7148.6UniSTS
BF387391  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,426,724 - 31,426,916NCBIRnor6.0
Rnor_5.0731,518,020 - 31,518,212UniSTSRnor5.0
RGSC_v3.4727,660,001 - 27,660,193UniSTSRGSC3.4
Celera722,349,725 - 22,349,917UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7153.01UniSTS
BE102988  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,439,931 - 31,440,123NCBIRnor6.0
Rnor_5.0731,531,227 - 31,531,419UniSTSRnor5.0
RGSC_v3.4727,674,185 - 27,674,377UniSTSRGSC3.4
Celera722,363,968 - 22,364,160UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7147.4UniSTS
BE097681  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,418,492 - 31,418,674NCBIRnor6.0
Rnor_6.0731,431,149 - 31,431,331NCBIRnor6.0
Rnor_5.0731,522,445 - 31,522,627UniSTSRnor5.0
Rnor_5.0731,513,065 - 31,513,247UniSTSRnor5.0
RGSC_v3.4727,664,426 - 27,664,608UniSTSRGSC3.4
Celera722,354,164 - 22,354,346UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7145.2UniSTS
BF401678  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,478,858 - 31,479,038NCBIRnor6.0
Rnor_5.0731,570,154 - 31,570,334UniSTSRnor5.0
RGSC_v3.4727,713,121 - 27,713,301UniSTSRGSC3.4
Celera722,402,903 - 22,403,083UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7152.3UniSTS
BF403875  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,508,324 - 31,508,533NCBIRnor6.0
Rnor_5.0731,599,571 - 31,599,780UniSTSRnor5.0
RGSC_v3.4727,743,732 - 27,743,941UniSTSRGSC3.4
Celera722,432,084 - 22,432,293UniSTS
Cytogenetic Map7q13UniSTS
RH136686  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,682,038 - 31,682,220NCBIRnor6.0
Rnor_5.0731,773,614 - 31,773,796UniSTSRnor5.0
RGSC_v3.4727,915,105 - 27,915,287UniSTSRGSC3.4
Celera722,602,995 - 22,603,177UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7176.0UniSTS
AW533069  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0731,430,587 - 31,430,794NCBIRnor6.0
Rnor_5.0731,521,883 - 31,522,090UniSTSRnor5.0
RGSC_v3.4727,663,864 - 27,664,071UniSTSRGSC3.4
Celera722,353,511 - 22,353,718UniSTS
Cytogenetic Map7q13UniSTS
RH 3.4 Map7148.4UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7134147172Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7134828535Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7134828535Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7137009673Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7138119654Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7265313832258115Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)72920071124838025Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7591147750911477Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7595196950951969Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7975804554758045Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)71164710256647102Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71232846767193263Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)712328467106995532Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)71268785067801690Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71395217958952179Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)71444568559445685Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)72021558344668493Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)72021558344668493Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)72021558344668493Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)72216841267168412Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)72417533732258115Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)72473146569731465Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72473868040433335Rat
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)72536563357064364Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)72536563357064364Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)72536563360317612Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)72536563393155402Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)72650888736346595Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72820465373204653Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)73138152976381529Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:224
Count of miRNA genes:77
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000038488, ENSRNOT00000038501, ENSRNOT00000052319, ENSRNOT00000059269
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
Medium 60
Low 2 1 1 1 1 12 15 15 2 1
Below cutoff 3 28 19 5 18 5 7 7 2 20 26 9 7

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001271371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241249 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594832 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07056576 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056578 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056582 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056584 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056589 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07056596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048176 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048177 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048178 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048179 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048181 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048182 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048189 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048192 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048193 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048194 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048195 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048196 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048197 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048198 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048199 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048204 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048205 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048208 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048209 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048210 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048213 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048221 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048223 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048224 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048225 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01048230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY315019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000059269   ⟹   ENSRNOP00000056036
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl730,699,476 - 31,681,182 (+)Ensembl
RefSeq Acc Id: NM_001271371   ⟹   NP_001258300
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,507,135 - 31,682,990 (+)NCBI
Rnor_5.0730,603,416 - 31,776,175 (+)NCBI
Celera721,458,045 - 22,603,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241249   ⟹   XP_006241311
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0731,265,243 - 31,684,604 (+)NCBI
Rnor_5.0730,603,416 - 31,776,175 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765241   ⟹   XP_008763463
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,324 - 31,684,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765243   ⟹   XP_008763465
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0731,265,242 - 31,681,176 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594828   ⟹   XP_017450317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,326 - 31,684,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594829   ⟹   XP_017450318
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,327 - 31,684,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594830   ⟹   XP_017450319
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,324 - 31,684,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594831   ⟹   XP_017450320
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,329 - 31,684,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594832   ⟹   XP_017450321
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,323 - 31,678,337 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594833   ⟹   XP_017450322
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,323 - 31,681,176 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594834   ⟹   XP_017450323
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0730,714,326 - 31,678,337 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001258300   ⟸   NM_001271371
- Sequence:
RefSeq Acc Id: XP_006241311   ⟸   XM_006241249
- Peptide Label: isoform X10
- UniProtKB: P0C6S7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008763463   ⟸   XM_008765241
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_008763465   ⟸   XM_008765243
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017450322   ⟸   XM_017594833
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017450321   ⟸   XM_017594832
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017450319   ⟸   XM_017594830
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017450317   ⟸   XM_017594828
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017450323   ⟸   XM_017594834
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017450318   ⟸   XM_017594829
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017450320   ⟸   XM_017594831
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000056036   ⟸   ENSRNOT00000059269
Protein Domains
ANK_REP_REGION   PID   SAM

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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)
ACI/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
ACI/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
BBDP/Wor (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
BN/SsN (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
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)
Visual CSV TAB Printer
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)
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
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)
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)
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
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/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
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 (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
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
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
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
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
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 (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
SBH/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: 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
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 (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 (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
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 (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 (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 (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:1565556 AgrOrtholog
Ensembl Genes ENSRNOG00000024870 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000056036 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000059269 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.40.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ANKS1B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt-contain_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTB/PI_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_ANKS1_repeat1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_ANKS1_repeat2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 314721 ENTREZGENE
PANTHER PTHR24174:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ank_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PID UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Anks1b PhenoGen
PRINTS ANKYRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PID UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ANK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47769 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48403 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.147770 ENTREZGENE
UniProt ANS1B_RAT UniProtKB/Swiss-Prot
  F1M2J2_RAT UniProtKB/TrEMBL
  P0C6S7 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-02 Anks1b  ankyrin repeat and sterile alpha motif domain containing 1B   RGD1565556  similar to cajalin 2 isoform a   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565556  similar to cajalin 2 isoform a   RGD1565556_predicted  similar to cajalin 2 isoform a (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565556_predicted  similar to cajalin 2 isoform a (predicted)  LOC314721  similar to cajalin 2 isoform a  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC314721  similar to cajalin 2 isoform a      Symbol and Name status set to provisional 70820 PROVISIONAL