Sgip1 (SH3GL interacting endocytic adaptor 1) - Rat Genome Database

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Gene: Sgip1 (SH3GL interacting endocytic adaptor 1) Rattus norvegicus
Analyze
Symbol: Sgip1
Name: SH3GL interacting endocytic adaptor 1
RGD ID: 1564957
Description: Enables tubulin binding activity. Involved in several processes, including energy homeostasis; positive regulation of eating behavior; and response to dietary excess. Located in terminal bouton. Is active in presynapse. Orthologous to human SGIP1 (SH3GL interacting endocytic adaptor 1); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Endophilin-3-interacting protein; LOC313413; RGD1564957; SH3-containing GRB2-like protein 3-interacting protein 1; SH3-domain GRB2-like (endophilin) interacting protein 1; similar to RIKEN cDNA 3110007P09
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
mRatBN7.25117,536,752 - 117,734,593 (+)NCBI
Rnor_6.0 Ensembl5122,390,522 - 122,491,203 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05122,300,415 - 122,498,478 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05126,167,768 - 126,365,804 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45123,696,703 - 123,897,989 (+)NCBIRGSC3.4rn4RGSC3.4
Celera5116,112,672 - 116,308,424 (+)NCBICelera
Cytogenetic Map5q33NCBI
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

Cellular Component
AP-2 adaptor complex  (IEA,ISO,ISS)
clathrin-coated pit  (IBA,ISO)
clathrin-coated vesicle  (IBA,ISO,ISS)
cytoplasm  (IBA,ISO,ISS)
plasma membrane  (IBA,ISO,ISS)
presynapse  (IDA,IMP)
terminal bouton  (HDA)

Molecular Function

References

Additional References at PubMed
PMID:15057822   PMID:20946875   PMID:22167186   PMID:29476059  


Genomics

Comparative Map Data
Sgip1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25117,536,752 - 117,734,593 (+)NCBI
Rnor_6.0 Ensembl5122,390,522 - 122,491,203 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05122,300,415 - 122,498,478 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05126,167,768 - 126,365,804 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45123,696,703 - 123,897,989 (+)NCBIRGSC3.4rn4RGSC3.4
Celera5116,112,672 - 116,308,424 (+)NCBICelera
Cytogenetic Map5q33NCBI
SGIP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl166,533,267 - 66,751,139 (+)EnsemblGRCh38hg38GRCh38
GRCh38166,533,361 - 66,751,139 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37166,999,044 - 67,216,822 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36166,772,413 - 66,983,356 (+)NCBINCBI36hg18NCBI36
Celera165,290,173 - 65,500,737 (+)NCBI
Cytogenetic Map1p31.3NCBI
HuRef165,109,074 - 65,319,047 (+)NCBIHuRef
CHM1_1167,115,379 - 67,326,126 (+)NCBICHM1_1
Sgip1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394102,616,351 - 102,834,623 (+)NCBIGRCm39mm39
GRCm39 Ensembl4102,598,494 - 102,830,825 (+)Ensembl
GRCm384102,741,302 - 102,977,426 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4102,741,297 - 102,973,628 (+)EnsemblGRCm38mm10GRCm38
MGSCv374102,432,968 - 102,643,782 (+)NCBIGRCm37mm9NCBIm37
MGSCv364102,258,295 - 102,469,109 (+)NCBImm8
Celera4101,125,168 - 101,335,919 (+)NCBICelera
Cytogenetic Map4C6NCBI
Sgip1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542324,157,368 - 24,353,206 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542324,155,401 - 24,353,166 (-)NCBIChiLan1.0ChiLan1.0
SGIP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1167,668,456 - 67,885,094 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl167,669,222 - 67,877,073 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0165,782,856 - 65,999,721 (+)NCBIMhudiblu_PPA_v0panPan3
SGIP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1543,741,507 - 43,944,289 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl543,746,506 - 43,943,414 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha543,865,785 - 44,067,468 (-)NCBI
ROS_Cfam_1.0543,927,271 - 44,132,033 (-)NCBI
UMICH_Zoey_3.1543,893,104 - 44,097,647 (-)NCBI
UNSW_CanFamBas_1.0543,839,137 - 44,043,106 (-)NCBI
UU_Cfam_GSD_1.0544,079,263 - 44,281,189 (-)NCBI
Sgip1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505879,473,546 - 79,676,652 (+)NCBI
SpeTri2.0NW_0049365914,815,222 - 5,015,250 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SGIP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6145,822,267 - 146,051,955 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16145,815,658 - 146,051,621 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SGIP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12066,349,378 - 66,565,216 (-)NCBI
ChlSab1.1 Ensembl2066,357,440 - 66,473,483 (-)Ensembl
Vero_WHO_p1.0NW_02366603351,029,998 - 51,245,493 (+)NCBI
Sgip1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474228,245,140 - 28,439,705 (-)NCBI

Position Markers
D5Got245  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,534,427 - 117,534,531 (+)MAPPER
Rnor_6.05122,298,083 - 122,298,186NCBIRnor6.0
Rnor_5.05126,165,429 - 126,165,532UniSTSRnor5.0
RGSC_v3.45123,705,085 - 123,705,188UniSTSRGSC3.4
Celera5116,110,340 - 116,110,443UniSTS
Cytogenetic Map5q34UniSTS
RH132380  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,661,068 - 117,661,253 (+)MAPPER
Rnor_6.05122,424,969 - 122,425,153NCBIRnor6.0
Rnor_5.05126,292,315 - 126,292,499UniSTSRnor5.0
RGSC_v3.45123,831,710 - 123,831,894UniSTSRGSC3.4
Celera5116,235,090 - 116,235,274UniSTS
Cytogenetic Map5q34UniSTS
BF386054  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,719,059 - 117,719,238 (+)MAPPER
Rnor_6.05122,482,950 - 122,483,128NCBIRnor6.0
Rnor_5.05126,350,276 - 126,350,454UniSTSRnor5.0
RGSC_v3.45123,889,736 - 123,889,914UniSTSRGSC3.4
Celera5116,292,896 - 116,293,074UniSTS
RH 3.4 Map5787.2UniSTS
Cytogenetic Map5q34UniSTS
AW531434  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,726,101 - 117,726,283 (+)MAPPER
Rnor_6.05122,489,992 - 122,490,173NCBIRnor6.0
Rnor_5.05126,357,318 - 126,357,499UniSTSRnor5.0
RGSC_v3.45123,896,778 - 123,896,959UniSTSRGSC3.4
Celera5116,299,938 - 116,300,119UniSTS
RH 3.4 Map5691.1UniSTS
Cytogenetic Map5q34UniSTS
RH137908  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,728,810 - 117,728,942 (+)MAPPER
Rnor_6.05122,492,701 - 122,492,832NCBIRnor6.0
Rnor_5.05126,360,027 - 126,360,158UniSTSRnor5.0
RGSC_v3.45123,899,487 - 123,899,618UniSTSRGSC3.4
Celera5116,302,647 - 116,302,778UniSTS
RH 3.4 Map5690.9UniSTS
Cytogenetic Map5q34UniSTS
RH138346  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,542,119 - 117,542,301 (+)MAPPER
Rnor_6.05122,305,761 - 122,305,942NCBIRnor6.0
Rnor_5.05126,173,107 - 126,173,288UniSTSRnor5.0
RGSC_v3.45123,712,763 - 123,712,944UniSTSRGSC3.4
Celera5116,118,018 - 116,118,199UniSTS
RH 3.4 Map5786.8UniSTS
Cytogenetic Map5q34UniSTS
RH138745  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,644,101 - 117,644,293 (+)MAPPER
Rnor_6.05122,408,002 - 122,408,193NCBIRnor6.0
Rnor_5.05126,275,348 - 126,275,539UniSTSRnor5.0
RGSC_v3.45123,814,743 - 123,814,934UniSTSRGSC3.4
Celera5116,218,189 - 116,218,380UniSTS
RH 3.4 Map5786.5UniSTS
Cytogenetic Map5q34UniSTS
BF390213  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,729,730 - 117,729,881 (+)MAPPER
Rnor_6.05122,493,621 - 122,493,771NCBIRnor6.0
Rnor_5.05126,360,947 - 126,361,097UniSTSRnor5.0
RGSC_v3.45123,900,407 - 123,900,557UniSTSRGSC3.4
Celera5116,303,567 - 116,303,717UniSTS
RH 3.4 Map5719.5UniSTS
Cytogenetic Map5q34UniSTS
RH124566  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25117,703,291 - 117,703,393 (+)MAPPER
Rnor_6.05122,467,187 - 122,467,288NCBIRnor6.0
Rnor_5.05126,334,533 - 126,334,634UniSTSRnor5.0
RGSC_v3.45123,873,928 - 123,874,029UniSTSRGSC3.4
Celera5116,277,198 - 116,277,299UniSTS
Cytogenetic Map5q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531926122136640934Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535788756147487820Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540777918154732375Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)544404276134502294Rat
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)547745646167946134Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)551418671147487820Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)556991667137729065Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)560072951133313852Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)561086525149030144Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)561612600168109659Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)565696672129038896Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)571552569157225114Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)583424556128424556Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)583424556128424556Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)583424556128424556Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)584963058173504662Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)589502294134502294Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)591585539136585539Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)591585539136585539Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)591585539136585539Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)591884213136884213Rat
1358889Bp261Blood pressure QTL 2612.86arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)593037304133313852Rat
1358909Kidm25Kidney mass QTL 251.87kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)593037304133313852Rat
631527Tls1T-lymphoma susceptibility QTL 100.001thymus integrity trait (VT:0010555)post-insult time to onset of T-cell lymphoma (CMO:0001907)593273130138273130Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)597921932149030144Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)5100723739153577831Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)5101265591141912026Rat
1582212Livw2Liver weight QTL 23.50.0004liver mass (VT:0003402)liver weight as percentage of body weight (CMO:0000141)5102498468123852688Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)5102945579154732228Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5107119214152119214Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5111278451156278451Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5112279412157279412Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5112279412157279412Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5112279412157279412Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5112279412157279412Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5112279412157279412Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5114140832159140832Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5114140832159140832Rat
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)5116767924161767924Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5116767924161767924Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5116767924161767924Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5116767924161767924Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:529
Count of miRNA genes:139
Interacting mature miRNAs:158
Transcripts:ENSRNOT00000008712, ENSRNOT00000009030, ENSRNOT00000043261, ENSRNOT00000044184, ENSRNOT00000046609, ENSRNOT00000050999, ENSRNOT00000064567
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 64 9 5
Low 2 13 24 8 15 8 8 10 10 35 31 6 8
Below cutoff 1 28 27 27 4 27 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001376936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763919 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008776009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593760 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593761 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593763 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593764 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593765 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593773 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593774 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593775 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603030 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603034 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603037 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603038 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603041 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109919 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109927 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109928 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109930 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109945 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212764 (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: ENSRNOT00000064567   ⟹   ENSRNOP00000059906
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5122,390,522 - 122,491,203 (+)Ensembl
RefSeq Acc Id: NM_001376936   ⟹   NP_001363865
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,746 - 117,734,588 (+)NCBI
RefSeq Acc Id: XM_017593763   ⟹   XP_017449252
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
Rnor_6.05122,301,402 - 122,498,478 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593764   ⟹   XP_017449253
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
Rnor_6.05122,301,402 - 122,498,478 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593769   ⟹   XP_017449258
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
Rnor_6.05122,301,403 - 122,498,478 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593770   ⟹   XP_017449259
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
Rnor_6.05122,301,402 - 122,498,478 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593774   ⟹   XP_017449263
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
Rnor_6.05122,301,402 - 122,498,478 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593775   ⟹   XP_017449264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
Rnor_6.05122,301,403 - 122,498,478 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039109919   ⟹   XP_038965847
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,536,752 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109920   ⟹   XP_038965848
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,391 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109921   ⟹   XP_038965849
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109922   ⟹   XP_038965850
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109923   ⟹   XP_038965851
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109924   ⟹   XP_038965852
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109926   ⟹   XP_038965854
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109927   ⟹   XP_038965855
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109928   ⟹   XP_038965856
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109929   ⟹   XP_038965857
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109930   ⟹   XP_038965858
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109931   ⟹   XP_038965859
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109933   ⟹   XP_038965861
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109934   ⟹   XP_038965862
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,736 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109935   ⟹   XP_038965863
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109936   ⟹   XP_038965864
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109937   ⟹   XP_038965865
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109938   ⟹   XP_038965866
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109939   ⟹   XP_038965867
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,733 - 117,716,247 (+)NCBI
RefSeq Acc Id: XM_039109940   ⟹   XP_038965868
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,737 - 117,734,593 (+)NCBI
RefSeq Acc Id: XM_039109941   ⟹   XP_038965869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,734 - 117,716,247 (+)NCBI
RefSeq Acc Id: XM_039109942   ⟹   XP_038965870
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,733 - 117,697,340 (+)NCBI
RefSeq Acc Id: XM_039109943   ⟹   XP_038965871
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,734 - 117,692,386 (+)NCBI
RefSeq Acc Id: XM_039109944   ⟹   XP_038965872
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,734 - 117,697,340 (+)NCBI
RefSeq Acc Id: XM_039109945   ⟹   XP_038965873
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25117,537,734 - 117,697,340 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001363865 (Get FASTA)   NCBI Sequence Viewer  
  XP_017449252 (Get FASTA)   NCBI Sequence Viewer  
  XP_017449253 (Get FASTA)   NCBI Sequence Viewer  
  XP_017449258 (Get FASTA)   NCBI Sequence Viewer  
  XP_017449259 (Get FASTA)   NCBI Sequence Viewer  
  XP_017449263 (Get FASTA)   NCBI Sequence Viewer  
  XP_017449264 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965847 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965848 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965849 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965850 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965851 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965852 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965854 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965855 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965856 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965857 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965858 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965859 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965861 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965862 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965863 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965864 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965865 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965866 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965867 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965868 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965869 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965870 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965871 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965872 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965873 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL97855 (Get FASTA)   NCBI Sequence Viewer  
  EDL97856 (Get FASTA)   NCBI Sequence Viewer  
  EDL97857 (Get FASTA)   NCBI Sequence Viewer  
  EDL97858 (Get FASTA)   NCBI Sequence Viewer  
  P0DJJ3 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_017449252   ⟸   XM_017593763
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017449253   ⟸   XM_017593764
- Peptide Label: isoform X8
- UniProtKB: P0DJJ3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449263   ⟸   XM_017593774
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_017449259   ⟸   XM_017593770
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_017449258   ⟸   XM_017593769
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017449264   ⟸   XM_017593775
- Peptide Label: isoform X20
- Sequence:
RefSeq Acc Id: ENSRNOP00000059906   ⟸   ENSRNOT00000064567
RefSeq Acc Id: XP_038965847   ⟸   XM_039109919
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965848   ⟸   XM_039109920
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965867   ⟸   XM_039109939
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038965870   ⟸   XM_039109942
- Peptide Label: isoform X27
RefSeq Acc Id: XP_038965869   ⟸   XM_039109941
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038965873   ⟸   XM_039109945
- Peptide Label: isoform X30
RefSeq Acc Id: XP_038965872   ⟸   XM_039109944
- Peptide Label: isoform X29
RefSeq Acc Id: XP_038965871   ⟸   XM_039109943
- Peptide Label: isoform X28
RefSeq Acc Id: XP_038965856   ⟸   XM_039109928
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038965852   ⟸   XM_039109924
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038965862   ⟸   XM_039109934
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038965854   ⟸   XM_039109926
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038965849   ⟸   XM_039109921
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038965850   ⟸   XM_039109922
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038965851   ⟸   XM_039109923
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038965857   ⟸   XM_039109929
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038965858   ⟸   XM_039109930
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038965861   ⟸   XM_039109933
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038965863   ⟸   XM_039109935
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038965865   ⟸   XM_039109937
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038965855   ⟸   XM_039109927
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038965859   ⟸   XM_039109931
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038965864   ⟸   XM_039109936
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038965866   ⟸   XM_039109938
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038965868   ⟸   XM_039109940
- Peptide Label: isoform X25
RefSeq Acc Id: NP_001363865   ⟸   NM_001376936
Protein Domains
MHD

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)
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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 (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/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 (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
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)
F344/NCrl (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
F344/NRrrc (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
FHH/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)
FHH/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
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)
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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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
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)
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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
SBN/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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/Gcrc (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
WKY/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
WKY/NCrl (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
WKY/NHsd (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
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564957 AgrOrtholog
Ensembl Genes ENSRNOG00000006357 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000059906 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064567 UniProtKB/TrEMBL
InterPro AP2_Mu_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Muniscin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SGIP1_MHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 313413 ENTREZGENE
Pfam muHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sgip1 PhenoGen
PROSITE MHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49447 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1M1Y0_RAT UniProtKB/TrEMBL
  P0DJJ3 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-05 Sgip1  SH3GL interacting endocytic adaptor 1  Sgip1  SH3-domain GRB2-like (endophilin) interacting protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Sgip1  SH3-domain GRB2-like (endophilin) interacting protein 1  RGD1564957_predicted  similar to RIKEN cDNA 3110007P09 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1564957_predicted  similar to RIKEN cDNA 3110007P09 (predicted)  LOC313413  similar to RIKEN cDNA 3110007P09  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC313413  similar to RIKEN cDNA 3110007P09      Symbol and Name status set to provisional 70820 PROVISIONAL