Ica1 (islet cell autoantigen 1) - Rat Genome Database

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Gene: Ica1 (islet cell autoantigen 1) Rattus norvegicus
Analyze
Symbol: Ica1
Name: islet cell autoantigen 1
RGD ID: 621465
Description: Enables protein domain specific binding activity. Involved in regulation of protein-containing complex assembly. Located in Golgi apparatus; dendrite; and perinuclear region of cytoplasm. Used to study diabetes mellitus. Human ortholog(s) of this gene implicated in type 1 diabetes mellitus. Orthologous to human ICA1 (islet cell autoantigen 1); PARTICIPATES IN type 1 diabetes mellitus pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 69 kDa islet cell autoantigen; ICA69; ICAp69; islet cell autoantigen 1, 69 kDa; islet cell autoantigen p69; p69
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Candidate Gene For: Gluco32 Gluco61
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8437,622,759 - 37,771,055 (-)NCBIGRCr8
mRatBN7.2436,656,475 - 36,804,705 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl436,656,475 - 36,804,298 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx441,623,730 - 41,765,233 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0437,549,925 - 37,691,432 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0435,962,394 - 36,103,901 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0434,635,509 - 34,780,187 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl434,635,506 - 34,780,193 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0434,493,594 - 34,639,924 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4433,680,878 - 33,830,443 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1433,799,417 - 33,948,647 (-)NCBI
Celera432,158,705 - 32,303,677 (-)NCBICelera
Cytogenetic Map4q21NCBI
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
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-acetamidofluorene  (EXP)
2-methylcholine  (ISO)
2-palmitoylglycerol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[ghi]perylene  (ISO)
beta-naphthoflavone  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlordecone  (ISO)
choline  (ISO)
chrysene  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclophosphamide  (ISO)
dexamethasone  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
furan  (EXP)
indole-3-methanol  (EXP)
indometacin  (ISO)
L-methionine  (ISO)
menadione  (ISO)
methylparaben  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
ozone  (ISO)
p-toluidine  (EXP)
paracetamol  (ISO)
pentanal  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (ISO)
pirinixic acid  (EXP)
propanal  (ISO)
prothioconazole  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. PICK1-ICA69 heteromeric BAR domain complex regulates synaptic targeting and surface expression of AMPA receptors. Cao M, etal., J Neurosci. 2007 Nov 21;27(47):12945-56.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Reduced thymic expression of islet antigen contributes to loss of self-tolerance. Mathews CE, etal., Ann N Y Acad Sci. 2003 Nov;1005:412-7.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Cloning of human and rat p69 cDNA, a candidate autoimmune target in type 1 diabetes. Miyazaki I, etal., Biochim Biophys Acta 1994 Oct 21;1227(1-2):101-4.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. HLA-associated inverse correlation between T cell and antibody responsiveness to islet autoantigen in recent-onset insulin-dependent diabetes mellitus. Roep BO, etal., Eur J Immunol. 1996 Jun;26(6):1285-9.
13. Islet cell autoantigen of 69 kDa is an arfaptin-related protein associated with the Golgi complex of insulinoma INS-1 cells. Spitzenberger F, etal., J Biol Chem 2003 Jul 11;278(28):26166-73.
14. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
15. ICA69(null) nonobese diabetic mice develop diabetes, but resist disease acceleration by cyclophosphamide. Winer S, etal., J Immunol. 2002 Jan 1;168(1):475-82.
Additional References at PubMed
PMID:11029035   PMID:15489334   PMID:17213368   PMID:20530722   PMID:25392508   PMID:29768204  


Genomics

Comparative Map Data
Ica1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8437,622,759 - 37,771,055 (-)NCBIGRCr8
mRatBN7.2436,656,475 - 36,804,705 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl436,656,475 - 36,804,298 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx441,623,730 - 41,765,233 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0437,549,925 - 37,691,432 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0435,962,394 - 36,103,901 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0434,635,509 - 34,780,187 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl434,635,506 - 34,780,193 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0434,493,594 - 34,639,924 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4433,680,878 - 33,830,443 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1433,799,417 - 33,948,647 (-)NCBI
Celera432,158,705 - 32,303,677 (-)NCBICelera
Cytogenetic Map4q21NCBI
ICA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3878,113,184 - 8,262,555 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl78,113,184 - 8,262,687 (-)EnsemblGRCh38hg38GRCh38
GRCh3778,152,814 - 8,302,185 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3678,119,339 - 8,268,710 (-)NCBINCBI36Build 36hg18NCBI36
Build 3477,926,643 - 8,075,008NCBI
Celera78,120,520 - 8,269,877 (-)NCBICelera
Cytogenetic Map7p21.3NCBI
HuRef78,002,616 - 8,152,148 (-)NCBIHuRef
CHM1_178,152,546 - 8,301,969 (-)NCBICHM1_1
T2T-CHM13v2.078,231,684 - 8,381,157 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v278,198,979 - 8,348,384 (-)NCBI
Ica1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3968,630,527 - 8,778,531 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl68,630,527 - 8,778,488 (-)EnsemblGRCm39 Ensembl
GRCm3868,630,527 - 8,778,540 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl68,630,527 - 8,778,488 (-)EnsemblGRCm38mm10GRCm38
MGSCv3768,580,527 - 8,728,484 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3668,580,527 - 8,728,095 (-)NCBIMGSCv36mm8
Celera68,763,268 - 8,911,580 (-)NCBICelera
Cytogenetic Map6A1NCBI
cM Map64.38NCBI
Ica1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543215,136,757 - 15,269,125 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543215,136,606 - 15,297,415 (-)NCBIChiLan1.0ChiLan1.0
ICA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2613,013,277 - 13,167,399 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1761,337,989 - 61,492,116 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v078,838,319 - 8,992,433 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.178,187,748 - 8,340,829 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl78,188,479 - 8,314,556 (-)Ensemblpanpan1.1panPan2
ICA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11423,673,739 - 23,816,850 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1423,673,758 - 23,796,462 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1423,248,756 - 23,391,657 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01423,488,679 - 23,631,110 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1423,483,120 - 23,630,707 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11423,640,101 - 23,783,180 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01423,379,186 - 23,521,194 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01423,631,393 - 23,773,055 (-)NCBIUU_Cfam_GSD_1.0
Ica1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511837,005,982 - 37,151,681 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365851,711,976 - 1,857,861 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365851,711,863 - 1,857,861 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ICA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl978,332,393 - 78,515,087 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1978,364,478 - 78,515,092 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2986,173,296 - 86,215,276 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ICA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12149,938,697 - 50,094,024 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2149,938,503 - 50,093,874 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604254,304,161 - 54,461,847 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ica1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248135,739,302 - 5,871,039 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248135,739,394 - 5,896,212 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ica1
705 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:141
Count of miRNA genes:115
Interacting mature miRNAs:118
Transcripts:ENSRNOT00000011651
Prediction methods:Microtar, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61415Eae11Experimental allergic encephalomyelitis QTL 112.9nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)4139505420Rat
634323Hc2Hypercalciuria QTL 22.15urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)421079645210796Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2302371Stl22Serum triglyceride level QTL 225.15blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829457114705Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
631642Stl2Serum triglyceride level QTL 23.3blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521917856647776Rat
631209Bw2Body weight QTL24.2retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)4994088544463908Rat
1300141Bp178Blood pressure QTL 178arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)41002490139524530Rat
6478724Anxrr35Anxiety related response QTL 350.00449defecation behavior trait (VT:0010462)defecation measurement (CMO:0000997)41008408955084089Rat
6478766Anxrr47Anxiety related response QTL 470.09637locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)41008408955084089Rat
6478769Anxrr48Anxiety related response QTL 480.02514locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)41008408955084089Rat
8694374Bw155Body weight QTL 1553.390.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)41008408955084089Rat
9590304Scort17Serum corticosterone level QTL 174.960.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)41008408955084089Rat
8552906Pigfal3Plasma insulin-like growth factor 1 level QTL 3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)41008408955084089Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
2303585Bw86Body weight QTL 864body mass (VT:0001259)body weight (CMO:0000012)41467806559678065Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41793350862933508Rat
70222Eae2Experimental allergic encephalomyelitis QTL 24.3nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)42133334339505420Rat
1354665Stl10Serum triglyceride level QTL 103.57blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)42133334344463908Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42133334362278020Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
11530004Niddm71Non-insulin dependent diabetes mellitus QTL 710.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)43258419952754138Rat
8655949Rf62Renal function QTL 6222blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)43443011944463908Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)436303261103194984Rat

Markers in Region
D4Got205  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2436,750,101 - 36,750,323 (+)MAPPERmRatBN7.2
Rnor_6.0434,725,599 - 34,725,820NCBIRnor6.0
Rnor_5.0434,584,684 - 34,584,905UniSTSRnor5.0
RGSC_v3.4433,775,174 - 33,775,395UniSTSRGSC3.4
Celera432,249,385 - 32,249,609UniSTS
Cytogenetic Map4q21UniSTS
BF419765  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2436,738,868 - 36,739,055 (+)MAPPERmRatBN7.2
Rnor_6.0434,714,016 - 34,714,202NCBIRnor6.0
Rnor_5.0434,573,101 - 34,573,287UniSTSRnor5.0
RGSC_v3.4433,763,941 - 33,764,127UniSTSRGSC3.4
Celera432,238,183 - 32,238,369UniSTS
RH 3.4 Map4200.0UniSTS
Cytogenetic Map4q21UniSTS
AA800371  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2436,788,748 - 36,788,912 (+)MAPPERmRatBN7.2
Rnor_6.0434,764,181 - 34,764,344NCBIRnor6.0
Rnor_5.0434,623,932 - 34,624,095UniSTSRnor5.0
RGSC_v3.4433,814,557 - 33,814,720UniSTSRGSC3.4
Celera432,287,791 - 32,287,954UniSTS
RH 3.4 Map4200.5UniSTS
Cytogenetic Map4q21UniSTS


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 3 26 27 19 19 68 33 20 11
Low 17 30 22 19 22 8 11 6 2 21 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_030844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286741 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286743 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC063810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC078812 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L20900 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000011651   ⟹   ENSRNOP00000011651
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl436,656,475 - 36,804,298 (-)Ensembl
Rnor_6.0 Ensembl434,635,506 - 34,780,193 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077329   ⟹   ENSRNOP00000075191
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl436,656,475 - 36,804,298 (-)Ensembl
Rnor_6.0 Ensembl434,635,509 - 34,779,776 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100899   ⟹   ENSRNOP00000086969
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl436,656,475 - 36,804,298 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118007   ⟹   ENSRNOP00000095862
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl436,656,475 - 36,783,242 (-)Ensembl
RefSeq Acc Id: NM_030844   ⟹   NP_110471
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,905 (-)NCBI
mRatBN7.2436,656,475 - 36,804,634 (-)NCBI
Rnor_6.0434,635,509 - 34,780,107 (-)NCBI
Rnor_5.0434,493,594 - 34,639,924 (-)NCBI
RGSC_v3.4433,680,878 - 33,830,443 (-)RGD
Celera432,158,705 - 32,303,677 (-)RGD
Sequence:
RefSeq Acc Id: XM_006236092   ⟹   XP_006236154
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,716 (-)NCBI
mRatBN7.2436,656,475 - 36,804,425 (-)NCBI
Rnor_6.0434,635,509 - 34,779,908 (-)NCBI
Rnor_5.0434,493,594 - 34,639,924 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006236093   ⟹   XP_006236155
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,709 (-)NCBI
mRatBN7.2436,656,475 - 36,804,426 (-)NCBI
Rnor_6.0434,635,509 - 34,779,908 (-)NCBI
Rnor_5.0434,493,594 - 34,639,924 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006236094   ⟹   XP_006236156
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,725 (-)NCBI
mRatBN7.2436,656,475 - 36,804,426 (-)NCBI
Rnor_6.0434,635,509 - 34,779,908 (-)NCBI
Rnor_5.0434,493,594 - 34,639,924 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006236095   ⟹   XP_006236157
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,771,055 (-)NCBI
mRatBN7.2436,656,475 - 36,804,702 (-)NCBI
Rnor_6.0434,635,509 - 34,780,187 (-)NCBI
Rnor_5.0434,493,594 - 34,639,924 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039108416   ⟹   XP_038964344
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,994 (-)NCBI
mRatBN7.2436,656,475 - 36,804,705 (-)NCBI
RefSeq Acc Id: XM_063286738   ⟹   XP_063142808
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,994 (-)NCBI
RefSeq Acc Id: XM_063286739   ⟹   XP_063142809
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,716 (-)NCBI
RefSeq Acc Id: XM_063286740   ⟹   XP_063142810
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,994 (-)NCBI
RefSeq Acc Id: XM_063286741   ⟹   XP_063142811
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,716 (-)NCBI
RefSeq Acc Id: XM_063286742   ⟹   XP_063142812
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,992 (-)NCBI
RefSeq Acc Id: XM_063286743   ⟹   XP_063142813
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8437,622,759 - 37,770,681 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_110471   ⟸   NM_030844
- UniProtKB: Q6P3W0 (UniProtKB/Swiss-Prot),   Q63054 (UniProtKB/Swiss-Prot),   Q6AZ05 (UniProtKB/TrEMBL),   A6IDX8 (UniProtKB/TrEMBL),   A0A0G2K9Z2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236157   ⟸   XM_006236095
- Peptide Label: isoform X1
- UniProtKB: Q6P3W0 (UniProtKB/Swiss-Prot),   Q63054 (UniProtKB/Swiss-Prot),   Q6AZ05 (UniProtKB/TrEMBL),   A6IDX8 (UniProtKB/TrEMBL),   A0A0G2K9Z2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236156   ⟸   XM_006236094
- Peptide Label: isoform X1
- UniProtKB: Q6P3W0 (UniProtKB/Swiss-Prot),   Q63054 (UniProtKB/Swiss-Prot),   Q6AZ05 (UniProtKB/TrEMBL),   A6IDX8 (UniProtKB/TrEMBL),   A0A0G2K9Z2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236154   ⟸   XM_006236092
- Peptide Label: isoform X1
- UniProtKB: Q6P3W0 (UniProtKB/Swiss-Prot),   Q63054 (UniProtKB/Swiss-Prot),   Q6AZ05 (UniProtKB/TrEMBL),   A6IDX8 (UniProtKB/TrEMBL),   A0A0G2K9Z2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236155   ⟸   XM_006236093
- Peptide Label: isoform X1
- UniProtKB: Q6P3W0 (UniProtKB/Swiss-Prot),   Q63054 (UniProtKB/Swiss-Prot),   Q6AZ05 (UniProtKB/TrEMBL),   A6IDX8 (UniProtKB/TrEMBL),   A0A0G2K9Z2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000011651   ⟸   ENSRNOT00000011651
RefSeq Acc Id: ENSRNOP00000075191   ⟸   ENSRNOT00000077329
RefSeq Acc Id: XP_038964344   ⟸   XM_039108416
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A739 (UniProtKB/TrEMBL),   A6IDX7 (UniProtKB/TrEMBL),   F7FFT7 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000095862   ⟸   ENSRNOT00000118007
RefSeq Acc Id: ENSRNOP00000086969   ⟸   ENSRNOT00000100899
RefSeq Acc Id: XP_063142810   ⟸   XM_063286740
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A739 (UniProtKB/TrEMBL),   A6IDX7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142808   ⟸   XM_063286738
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K9Z2 (UniProtKB/TrEMBL),   A6IDX8 (UniProtKB/TrEMBL),   Q6AZ05 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142812   ⟸   XM_063286742
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A739 (UniProtKB/TrEMBL),   A6IDX7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142811   ⟸   XM_063286741
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A739 (UniProtKB/TrEMBL),   A6IDX7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142809   ⟸   XM_063286739
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A739 (UniProtKB/TrEMBL),   A6IDX7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142813   ⟸   XM_063286743
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A739 (UniProtKB/TrEMBL),   A6IDX7 (UniProtKB/TrEMBL)
Protein Domains
AH   Islet cell autoantigen Ica1 C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63054-F1-model_v2 AlphaFold Q63054 1-480 view protein structure

Transcriptome

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

Promoters
RGD ID:13692880
Promoter ID:EPDNEW_R3400
Type:initiation region
Name:Ica1_1
Description:islet cell autoantigen 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3401  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0434,779,810 - 34,779,870EPDNEW
RGD ID:13692876
Promoter ID:EPDNEW_R3401
Type:initiation region
Name:Ica1_2
Description:islet cell autoantigen 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3400  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0434,780,155 - 34,780,215EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621465 AgrOrtholog
BioCyc Gene G2FUF-45658 BioCyc
Ensembl Genes ENSRNOG00000008628 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00055001922 UniProtKB/Swiss-Prot
  ENSRNOG00060000801 UniProtKB/Swiss-Prot
  ENSRNOG00065010159 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000011651.6 UniProtKB/TrEMBL
  ENSRNOT00000077329.2 UniProtKB/TrEMBL
  ENSRNOT00000100899.1 UniProtKB/TrEMBL
  ENSRNOT00000118007.1 UniProtKB/TrEMBL
  ENSRNOT00055003159 UniProtKB/Swiss-Prot
  ENSRNOT00060000985 UniProtKB/Swiss-Prot
  ENSRNOT00065016471 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1270.60 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6921600 IMAGE-MGC_LOAD
  IMAGE:7112043 IMAGE-MGC_LOAD
InterPro AH/BAR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Islet_autoAg_Ica1/Ica1-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Islet_autoAg_Ica1_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81024 UniProtKB/TrEMBL
MGC_CLONE MGC:72803 IMAGE-MGC_LOAD
  MGC:93403 IMAGE-MGC_LOAD
NCBI Gene 81024 ENTREZGENE
PANTHER PTHR10164 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10164:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Arfaptin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ICA69 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ica1 PhenoGen
PROSITE PS50870 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000008628 RatGTEx
  ENSRNOG00055001922 RatGTEx
  ENSRNOG00060000801 RatGTEx
  ENSRNOG00065010159 RatGTEx
SMART Arfaptin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ICA69 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF103657 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K9Z2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A739 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AQ00_RAT UniProtKB/TrEMBL
  A6IDX7 ENTREZGENE, UniProtKB/TrEMBL
  A6IDX8 ENTREZGENE, UniProtKB/TrEMBL
  A6IDY0_RAT UniProtKB/TrEMBL
  A6IDY2_RAT UniProtKB/TrEMBL
  F7FFT7 ENTREZGENE, UniProtKB/TrEMBL
  ICA69_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6AZ05 ENTREZGENE
  Q6P3W0 ENTREZGENE
UniProt Secondary Q6AZ05 UniProtKB/TrEMBL
  Q6P3W0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Ica1  islet cell autoantigen 1    islet cell autoantigen 1, 69 kDa  Name updated 1299863 APPROVED
2002-08-07 Ica1  islet cell autoantigen 1, 69 kDa      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization associated with membrane trafficking at the Golgi complex and immature secretory granules in neurosecretory cells 633043
gene_cellular_localization associated with membrane trafficking at the Golgi complex and immature secretory granules in neurosecretory cells 724603
gene_expression expressed in neurons and insulinoma INS-1 cells 724603
gene_protein cytosolic protein 69 kDa in size 724603