Igsf9b (immunoglobulin superfamily, member 9B) - Rat Genome Database

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Gene: Igsf9b (immunoglobulin superfamily, member 9B) Rattus norvegicus
Analyze
Symbol: Igsf9b
Name: immunoglobulin superfamily, member 9B
RGD ID: 1564717
Description: Predicted to have kinase binding activity. Predicted to be involved in homophilic cell adhesion via plasma membrane adhesion molecules; positive regulation of inhibitory postsynaptic potential; and synaptic membrane adhesion. Localizes to GABA-ergic synapse and postsynaptic specialization of symmetric synapse. Orthologous to human IGSF9B (immunoglobulin superfamily member 9B); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A.
Type: protein-coding
RefSeq Status: INFERRED
Also known as: LOC315510; RGD1564717; similar to immunoglobulin superfamily, member 9
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
mRatBN7.2825,712,644 - 25,769,481 (+)NCBI
Rnor_6.0 Ensembl828,352,772 - 28,387,383 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0828,352,497 - 28,398,659 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0828,371,484 - 28,417,964 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4826,905,723 - 26,941,081 (+)NCBIRGSC3.4rn4RGSC3.4
Celera827,199,908 - 27,245,801 (+)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References


Genomics

Comparative Map Data
Igsf9b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2825,712,644 - 25,769,481 (+)NCBI
Rnor_6.0 Ensembl828,352,772 - 28,387,383 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0828,352,497 - 28,398,659 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0828,371,484 - 28,417,964 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4826,905,723 - 26,941,081 (+)NCBIRGSC3.4rn4RGSC3.4
Celera827,199,908 - 27,245,801 (+)NCBICelera
Cytogenetic Map8q13NCBI
IGSF9B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl11133,896,438 - 133,956,985 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl11133,896,438 - 133,956,968 (-)EnsemblGRCh38hg38GRCh38
GRCh3811133,896,438 - 133,956,968 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3711133,766,333 - 133,826,863 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611133,290,395 - 133,332,090 (-)NCBINCBI36hg18NCBI36
Celera11130,958,989 - 131,000,543 (-)NCBI
Cytogenetic Map11q25NCBI
HuRef11129,733,097 - 129,781,186 (-)NCBIHuRef
CHM1_111133,666,445 - 133,714,597 (-)NCBICHM1_1
Igsf9b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39927,210,400 - 27,268,845 (+)NCBIGRCm39mm39
GRCm39 Ensembl927,210,500 - 27,268,842 (+)Ensembl
GRCm38927,299,104 - 27,357,549 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl927,299,204 - 27,357,546 (+)EnsemblGRCm38mm10GRCm38
MGSCv37927,106,813 - 27,142,348 (+)NCBIGRCm37mm9NCBIm37
MGSCv36927,048,674 - 27,079,581 (+)NCBImm8
Celera924,556,035 - 24,591,567 (+)NCBICelera
Cytogenetic Map9A4NCBI
Igsf9b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541234,724,220 - 34,767,970 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541234,712,556 - 34,828,013 (-)NCBIChiLan1.0ChiLan1.0
IGSF9B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.111132,615,398 - 132,664,817 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11132,615,398 - 132,664,811 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v011128,734,144 - 128,802,383 (-)NCBIMhudiblu_PPA_v0panPan3
IGSF9B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.151,273,897 - 1,330,449 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl51,273,444 - 1,320,283 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha51,393,068 - 1,449,478 (+)NCBI
ROS_Cfam_1.051,229,631 - 1,282,799 (+)NCBI
UMICH_Zoey_3.151,262,743 - 1,319,089 (+)NCBI
UNSW_CanFamBas_1.051,263,137 - 1,309,321 (+)NCBI
UU_Cfam_GSD_1.051,300,951 - 1,357,368 (+)NCBI
Igsf9b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947115,640,774 - 115,700,847 (-)NCBI
SpeTri2.0NW_0049366841,902,111 - 1,956,106 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IGSF9B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl960,479,030 - 60,522,066 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1960,467,321 - 60,521,463 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2967,034,855 - 67,060,060 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IGSF9B
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11124,969,228 - 125,021,334 (-)NCBI
ChlSab1.1 Ensembl1124,974,027 - 125,021,200 (-)Ensembl
Igsf9b
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248128,436,525 - 8,514,435 (-)NCBI

Position Markers
BE119595  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0828,353,191 - 28,353,344NCBIRnor6.0
Rnor_5.0828,372,180 - 28,372,333UniSTSRnor5.0
RGSC_v3.4826,906,368 - 26,906,521UniSTSRGSC3.4
Celera827,200,602 - 27,200,755UniSTS
RH 3.4 Map8221.6UniSTS
Cytogenetic Map8q13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8210812847108128Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8210812847108128Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8210812847108128Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8210812847108128Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8736807652368076Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8736807652368076Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8736807652368076Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8873867753738677Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)89531047119211942Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)81038843955388439Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)81038843955388439Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810938911120496129Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81137326757541668Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81137350945712344Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81137350945712344Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81144825156448251Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81144825156448251Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81766655562666555Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)82071759265717592Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)82146491991140553Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)821813070100873963Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82784149672841496Rat
1359021Bp271Blood pressure QTL 2711.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82816802350708951Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:105
Count of miRNA genes:85
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000012391
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 62
Low 2 40 22 6 15 6 2 2 12 35 41 8 2
Below cutoff 1 2 9 9 4 9 6 6 3 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001376950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_001054496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226352 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242743 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595989 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_235959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005487809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005487810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000012391   ⟹   ENSRNOP00000012391
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl828,352,772 - 28,387,383 (+)Ensembl
RefSeq Acc Id: NM_001376950   ⟹   NP_001363879
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,644 - 25,758,554 (+)NCBI
RefSeq Acc Id: XM_001054496   ⟹   XP_001054496
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,909 - 27,245,801 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226347   ⟹   XP_006226409
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,909 - 27,245,801 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226351   ⟹   XP_006226413
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,909 - 27,245,801 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226352   ⟹   XP_006226414
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,908 - 27,241,909 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242739   ⟹   XP_006242801
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0828,352,498 - 28,398,659 (+)NCBI
Rnor_5.0828,371,484 - 28,417,964 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242743   ⟹   XP_006242805
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,663 - 25,769,481 (+)NCBI
Rnor_6.0828,352,498 - 28,398,659 (+)NCBI
Rnor_5.0828,371,484 - 28,417,964 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242744   ⟹   XP_006242806
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0828,352,497 - 28,394,767 (+)NCBI
Rnor_5.0828,371,484 - 28,417,964 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595986   ⟹   XP_017451475
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,662 - 25,748,256 (+)NCBI
Rnor_6.0828,352,497 - 28,388,368 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595987   ⟹   XP_017451476
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0828,352,497 - 28,394,767 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595988   ⟹   XP_017451477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,663 - 25,758,035 (+)NCBI
Rnor_6.0828,352,497 - 28,398,086 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595989   ⟹   XP_017451478
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,663 - 25,758,035 (+)NCBI
Rnor_6.0828,352,497 - 28,398,086 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603590   ⟹   XP_017459079
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,908 - 27,235,510 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603591   ⟹   XP_017459080
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,908 - 27,241,909 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603592   ⟹   XP_017459081
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,908 - 27,245,228 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603593   ⟹   XP_017459082
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera827,199,908 - 27,245,228 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039081368   ⟹   XP_038937296
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,735,906 - 25,769,481 (+)NCBI
RefSeq Acc Id: XM_039081369   ⟹   XP_038937297
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,735,845 - 25,769,481 (+)NCBI
RefSeq Acc Id: XM_039081370   ⟹   XP_038937298
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,742,339 - 25,769,481 (+)NCBI
RefSeq Acc Id: XM_039081371   ⟹   XP_038937299
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,666 - 25,742,101 (+)NCBI
RefSeq Acc Id: XM_235959   ⟹   XP_235959
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,664 - 25,769,481 (+)NCBI
Rnor_6.0828,352,498 - 28,398,659 (+)NCBI
Rnor_5.0828,371,484 - 28,417,964 (+)NCBI
RGSC_v3.4826,905,723 - 26,941,081 (+)RGD
Sequence:
RefSeq Acc Id: XR_005487809
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,663 - 25,757,921 (+)NCBI
RefSeq Acc Id: XR_005487810
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2825,712,663 - 25,757,921 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_001054496   ⟸   XM_001054496
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_235959   ⟸   XM_235959
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006226414   ⟸   XM_006226352
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006226409   ⟸   XM_006226347
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006226413   ⟸   XM_006226351
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006242806   ⟸   XM_006242744
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006242801   ⟸   XM_006242739
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006242805   ⟸   XM_006242743
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017459081   ⟸   XM_017603592
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017459082   ⟸   XM_017603593
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017459080   ⟸   XM_017603591
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017459079   ⟸   XM_017603590
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017451477   ⟸   XM_017595988
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017451478   ⟸   XM_017595989
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017451476   ⟸   XM_017595987
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017451475   ⟸   XM_017595986
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000012391   ⟸   ENSRNOT00000012391
RefSeq Acc Id: NP_001363879   ⟸   NM_001376950
- Peptide Label: precursor
RefSeq Acc Id: XP_038937299   ⟸   XM_039081371
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038937297   ⟸   XM_039081369
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038937296   ⟸   XM_039081368
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038937298   ⟸   XM_039081370
- Peptide Label: isoform X8
Protein Domains
Fibronectin type-III   Ig-like

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)
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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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 28391247 28391248 A G snv SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564717 AgrOrtholog
Ensembl Genes ENSRNOG00000009253 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000012391 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000012391 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
InterPro FN3_dom UniProtKB/Swiss-Prot
  FN3_sf UniProtKB/Swiss-Prot
  Ig-like_dom UniProtKB/Swiss-Prot
  Ig-like_dom_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig_sub UniProtKB/Swiss-Prot
  Ig_sub2 UniProtKB/Swiss-Prot
NCBI Gene 315510 ENTREZGENE
Pfam Ig_2 UniProtKB/Swiss-Prot
PhenoGen Igsf9b PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot
  IG_LIKE UniProtKB/Swiss-Prot
SMART FN3 UniProtKB/Swiss-Prot
  IGc2 UniProtKB/Swiss-Prot
  SM00409 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot
  SSF49265 UniProtKB/Swiss-Prot
UniProt D3ZB51 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Igsf9b  immunoglobulin superfamily, member 9B   Igsf9b_predicted  immunoglobulin superfamily, member 9B (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Igsf9b_predicted  immunoglobulin superfamily, member 9B (predicted)  RGD1564717_predicted  similar to immunoglobulin superfamily, member 9 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1564717_predicted  similar to immunoglobulin superfamily, member 9 (predicted)  LOC315510  similar to immunoglobulin superfamily, member 9  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC315510  similar to immunoglobulin superfamily, member 9      Symbol and Name status set to provisional 70820 PROVISIONAL