HAVCR1 (hepatitis A virus cellular receptor 1) - Rat Genome Database
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Gene: HAVCR1 (hepatitis A virus cellular receptor 1) Homo sapiens
Analyze
Symbol: HAVCR1
Name: hepatitis A virus cellular receptor 1
RGD ID: 1352552
HGNC Page HGNC
Description: Exhibits virus receptor activity. Predicted to be involved in several processes, including phagocytosis, engulfment; positive regulation of mast cell activation; and response to lipopolysaccharide. Localizes to motile cilium. Implicated in atopic dermatitis. Biomarker of several diseases, including hydronephrosis; hyperuricemia; kidney disease (multiple); relapsing-remitting multiple sclerosis; and vesicoureteral reflux.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: CD365; HAVCR; HAVCR-1; kidney injury molecule 1; KIM-1; KIM1; T cell immunoglobin domain and mucin domain protein 1; T-cell immunoglobulin mucin family member 1; T-cell immunoglobulin mucin receptor 1; T-cell membrane protein 1; TIM; TIM-1; TIM1; TIMD-1; TIMD1
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: HAVCR1P1   HAVCR1P2   LOC100421061  
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5157,029,413 - 157,059,119 (-)EnsemblGRCh38hg38GRCh38
GRCh385157,028,383 - 157,069,633 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh375156,455,989 - 156,486,130 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365156,389,109 - 156,418,065 (-)NCBINCBI36hg18NCBI36
Build 345156,389,014 - 156,418,548NCBI
Celera5152,482,103 - 152,511,651 (-)NCBI
Cytogenetic Map5q33.3NCBI
HuRef5151,544,985 - 151,574,299 (-)NCBIHuRef
CHM1_15155,888,828 - 155,918,885 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-lipoic acid  (EXP)
(S)-naringenin  (ISO)
(S)-nicotine  (ISO)
1-naphthyl isothiocyanate  (ISO)
11-deoxycorticosterone  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
3-chloropropane-1,2-diol  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (ISO)
acrylamide  (ISO)
adefovir  (ISO)
aflatoxin B1  (EXP)
allyl alcohol  (EXP)
ammonium chloride  (ISO)
amphotericin B methyl ester  (ISO)
anthocyanin  (ISO)
anthracen-2-amine  (ISO)
aristolochic acid  (ISO)
bacitracin  (ISO)
benzo[a]pyrene  (EXP)
bisphenol A  (ISO)
bleomycin A2  (ISO)
butanal  (EXP)
C60 fullerene  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (ISO)
canagliflozin  (ISO)
cefaloridine  (ISO)
chloroform  (EXP)
cholesterol  (ISO)
chromium atom  (ISO)
chromium(6+)  (EXP,ISO)
cidofovir anhydrous  (EXP)
cisplatin  (EXP,ISO)
cobalt dichloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
curcumin  (ISO)
cyanuric acid  (ISO)
cyclosporin A  (ISO)
deferasirox  (ISO)
desferrioxamine B  (ISO)
diclofenac  (EXP)
doxorubicin  (ISO)
ethanol  (ISO)
ethylene glycol  (EXP,ISO)
fenamic acid  (ISO)
folic acid  (ISO)
formaldehyde  (EXP)
formononetin  (ISO)
fructose  (ISO)
gefitinib  (ISO)
gentamycin  (EXP,ISO)
geraniol  (ISO)
glyphosate  (ISO)
gold atom  (EXP)
gold(0)  (EXP)
hesperidin  (ISO)
Hexachloro-1,3-butadiene  (ISO)
hydrogen chloride  (ISO)
hydrogen peroxide  (EXP)
icosanoid  (ISO)
iodixanol  (ISO)
iron(III) nitrilotriacetate  (ISO)
isocyanuric acid  (ISO)
isoniazide  (ISO)
ketoconazole  (ISO)
lipoic acid  (EXP)
lipopolysaccharide  (EXP)
lisinopril dihydrate  (ISO)
losartan  (ISO)
maleic acid  (ISO)
meglumine amidotrizoate  (ISO)
melamine  (ISO)
melatonin  (ISO)
menadione  (EXP)
mercury atom  (ISO)
mercury dichloride  (ISO)
mercury(0)  (ISO)
metformin  (ISO)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (ISO)
Natamycin  (ISO)
nicorandil  (ISO)
nicotine  (ISO)
nitric oxide  (ISO)
nystatin  (ISO)
ochratoxin A  (EXP,ISO)
Ondansetron  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenol  (EXP)
phenylbutazone  (ISO)
pirinixic acid  (ISO)
potassium bromate  (ISO)
potassium dichromate  (ISO)
probenecid  (EXP)
resveratrol  (ISO)
rotenone  (ISO)
salubrinal  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sodium cholate  (ISO)
sodium fluoride  (ISO)
streptozocin  (ISO)
tacrolimus hydrate  (ISO)
tenofovir disoproxil fumarate  (EXP)
testosterone  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (ISO)
tetramethylpyrazine  (ISO)
thioacetamide  (ISO)
trichloroethene  (ISO)
urethane  (EXP)
vancomycin  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)
zoledronic acid  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
1. Abassi Z, etal., J Urol. 2013 Apr;189(4):1559-66. doi: 10.1016/j.juro.2012.10.029. Epub 2012 Oct 22.
2. Abraham AP, etal., Nephrology (Carlton). 2012 May;17(4):322-9. doi: 10.1111/j.1440-1797.2012.01567.x.
3. Alter ML, etal., Clin Lab. 2012;58(7-8):659-71.
4. Aoyama M, etal., Biochem Biophys Res Commun. 2012 Mar 9;419(2):244-9. doi: 10.1016/j.bbrc.2012.02.001. Epub 2012 Feb 8.
5. Carlsson AC, etal., Eur J Heart Fail. 2013 Apr;15(4):441-6. doi: 10.1093/eurjhf/hfs187. Epub 2012 Dec 7.
6. Cuadros T, etal., Eur J Cancer. 2013 May;49(8):2034-47. doi: 10.1016/j.ejca.2012.12.020. Epub 2013 Jan 23.
7. Eirin A, etal., Nephrol Dial Transplant. 2012 Nov;27(11):4153-61. doi: 10.1093/ndt/gfs370. Epub 2012 Aug 23.
8. Fu WJ, etal., Diabetes Res Clin Pract. 2012 Jan;95(1):105-9. doi: 10.1016/j.diabres.2011.09.031. Epub 2011 Oct 20.
9. Gao LL, etal., Zhongguo Wei Zhong Bing Ji Jiu Yi Xue. 2012 Nov;24(11):647-50.
10. Gardiner L, etal., Am J Nephrol. 2012;35(2):152-63. doi: 10.1159/000335579. Epub 2012 Jan 20.
11. GOA_HUMAN data from the GO Consortium
12. Graves PE, etal., J Allergy Clin Immunol. 2005 Sep;116(3):650-6.
13. Han WK, etal., Kidney Int. 2002 Jul;62(1):237-44.
14. Hong MY, etal., Mediators Inflamm. 2012;2012:381358. doi: 10.1155/2012/381358. Epub 2012 Dec 23.
15. Hosohata K, etal., J Appl Toxicol. 2013 Jan 11. doi: 10.1002/jat.2849.
16. Jin ZK, etal., Mol Immunol. 2013 Jul;54(3-4):457-64. doi: 10.1016/j.molimm.2013.01.013. Epub 2013 Feb 27.
17. Khademi M, etal., J Immunol. 2004 Jun 1;172(11):7169-76.
18. Khandrika L, etal., PLoS One. 2012;7(9):e44174. doi: 10.1371/journal.pone.0044174. Epub 2012 Sep 12.
19. Kramer AB, etal., Kidney Int. 2007 Mar;71(5):417-24. Epub 2007 Jan 10.
20. Kuehn EW, etal., Am J Physiol Renal Physiol. 2002 Dec;283(6):F1326-36. Epub 2002 Jul 24.
21. Kwon SH, etal., Clin Exp Nephrol. 2012 Nov 8.
22. Lekawanvijit S, etal., Am J Physiol Heart Circ Physiol. 2012 May 1;302(9):H1884-93. doi: 10.¿1152/¿ajpheart.¿00967.¿2011. Epub 2012 Feb 24.
23. Lieberthal JG, etal., J Rheumatol. 2013 May;40(5):674-683. Epub 2013 Apr 1.
24. Oh SW, etal., BMC Nephrol. 2013 May 17;14(1):105.
25. OMIM Disease Annotation Pipeline
26. Peters HP, etal., Nephrol Dial Transplant. 2011 Nov;26(11):3581-8. doi: 10.1093/ndt/gfr135. Epub 2011 Apr 5.
27. Quiros Y, etal., Toxicol Sci. 2013 Apr;132(2):493-501. doi: 10.1093/toxsci/kft007. Epub 2013 Jan 18.
28. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
29. RGD automated import pipeline for gene-chemical interactions
30. Rouse RL, etal., Toxicol Pathol. 2013;41(4):662-80. doi: 10.1177/0192623312464122. Epub 2012 Oct 19.
31. Sabbisetti VS, etal., Toxicol Sci. 2013 Jan;131(1):13-25. doi: 10.1093/toxsci/kfs268. Epub 2012 Sep 27.
32. Shanu A, etal., Antioxid Redox Signal. 2013 Mar 1;18(7):756-69. doi: 10.1089/ars.2012.4591. Epub 2012 Oct 16.
33. Soljancic A, etal., Am J Physiol Regul Integr Comp Physiol. 2013 Apr 3.
34. Sonar SS, etal., J Clin Invest. 2010 Aug 2;120(8):2767-81. doi: 10.1172/JCI39543. Epub 2010 Jul 12.
35. Sundaram N, etal., Am J Hematol. 2011 Jul;86(7):559-66. doi: 10.1002/ajh.22045. Epub 2011 May 31.
36. Toker A, etal., Urology. 2013 Jan;81(1):168-72. doi: 10.1016/j.urology.2012.09.004. Epub 2012 Nov 30.
37. Tomczak J, etal., Pediatr Nephrol. 2013 May 15.
38. Vaidya VS, etal., Kidney Int. 2011 Feb;79(4):464-70. doi: 10.1038/ki.2010.404. Epub 2010 Oct 27.
39. van Timmeren MM, etal., Am J Physiol Renal Physiol. 2006 Aug;291(2):F456-64. Epub 2006 Feb 7.
40. Wasilewska A, etal., Pediatr Nephrol. 2011 Apr;26(4):579-86. doi: 10.1007/s00467-011-1773-5. Epub 2011 Jan 31.
Additional References at PubMed
PMID:9557657   PMID:9658108   PMID:11725301   PMID:12138159   PMID:12477932   PMID:12618867   PMID:12893810   PMID:14534576   PMID:14630400   PMID:14637143   PMID:15007635   PMID:15086915  
PMID:15300647   PMID:15489334   PMID:15867855   PMID:16344560   PMID:16481347   PMID:16713569   PMID:16940744   PMID:17117951   PMID:17205356   PMID:17229699   PMID:17371991   PMID:17570927  
PMID:17703412   PMID:18052965   PMID:18082433   PMID:18165774   PMID:18273441   PMID:18294362   PMID:18453570   PMID:18466531   PMID:18715847   PMID:18769021   PMID:18802347   PMID:19060906  
PMID:19167431   PMID:19173034   PMID:19247692   PMID:19258923   PMID:19264973   PMID:19387469   PMID:19424017   PMID:19476019   PMID:19480659   PMID:19494522   PMID:19522876   PMID:19572801  
PMID:20070602   PMID:20232767   PMID:20233133   PMID:20237496   PMID:20304168   PMID:20331378   PMID:20388397   PMID:20447817   PMID:20479636   PMID:20503287   PMID:20549518   PMID:20571754  
PMID:20686565   PMID:20819195   PMID:20972250   PMID:21339644   PMID:21367814   PMID:21378325   PMID:21402675   PMID:21412435   PMID:21513984   PMID:21536871   PMID:21723753   PMID:21873635  
PMID:21996225   PMID:22080624   PMID:22190394   PMID:22290466   PMID:22484054   PMID:22495365   PMID:22515481   PMID:22709877   PMID:22710823   PMID:22749388   PMID:22843853   PMID:22857392  
PMID:23026578   PMID:23220501   PMID:23233528   PMID:23267147   PMID:23505323   PMID:23555248   PMID:23599408   PMID:23698310   PMID:23837450   PMID:23936859   PMID:23964107   PMID:24044353  
PMID:24054338   PMID:24158981   PMID:24165570   PMID:24286866   PMID:24321290   PMID:24375576   PMID:24384771   PMID:24390735   PMID:24404151   PMID:24412470   PMID:24438875   PMID:24523388  
PMID:24652046   PMID:24687388   PMID:24696470   PMID:24801162   PMID:24829508   PMID:24904085   PMID:24923577   PMID:24958504   PMID:24998891   PMID:25063374   PMID:25136083   PMID:25152377  
PMID:25154466   PMID:25195004   PMID:25331534   PMID:25618270   PMID:25702396   PMID:25762211   PMID:25855742   PMID:25884518   PMID:25895828   PMID:25899833   PMID:25989460   PMID:26041148  
PMID:26107391   PMID:26125859   PMID:26248472   PMID:26282792   PMID:26324091   PMID:26332568   PMID:26332704   PMID:26393328   PMID:26407192   PMID:26422793   PMID:26474236   PMID:26509588  
PMID:26575624   PMID:26673824   PMID:26697493   PMID:26751954   PMID:26921445   PMID:27020372   PMID:27049082   PMID:27084535   PMID:27091308   PMID:27122240   PMID:27185658   PMID:27272162  
PMID:27295912   PMID:27310004   PMID:27431456   PMID:27562389   PMID:27652980   PMID:27709813   PMID:27771693   PMID:27818477   PMID:27907168   PMID:27966578   PMID:28005535   PMID:28103909  
PMID:28103916   PMID:28212617   PMID:28409285   PMID:28419138   PMID:28434117   PMID:28757398   PMID:28874468   PMID:28988230   PMID:28990414   PMID:29045706   PMID:29071538   PMID:29122357  
PMID:29141799   PMID:29208769   PMID:29295730   PMID:29321304   PMID:29457657   PMID:29693725   PMID:29742433   PMID:29875238   PMID:29893695   PMID:30037816   PMID:30078006   PMID:30110569  
PMID:30133147   PMID:30180818   PMID:30201372   PMID:30260998   PMID:30288572   PMID:30388143   PMID:30441759   PMID:30629206   PMID:30909833   PMID:30920848   PMID:31138322   PMID:31291122  
PMID:31302846   PMID:31414756   PMID:31483944   PMID:31679767   PMID:31800133   PMID:32460577   PMID:32541946  


Genomics

Comparative Map Data
HAVCR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5157,029,413 - 157,059,119 (-)EnsemblGRCh38hg38GRCh38
GRCh385157,028,383 - 157,069,633 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh375156,455,989 - 156,486,130 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365156,389,109 - 156,418,065 (-)NCBINCBI36hg18NCBI36
Build 345156,389,014 - 156,418,548NCBI
Celera5152,482,103 - 152,511,651 (-)NCBI
Cytogenetic Map5q33.3NCBI
HuRef5151,544,985 - 151,574,299 (-)NCBIHuRef
CHM1_15155,888,828 - 155,918,885 (-)NCBICHM1_1
Havcr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391146,630,644 - 46,670,405 (+)NCBIGRCm39mm39
GRCm381146,739,822 - 46,779,578 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1146,735,080 - 46,779,578 (+)EnsemblGRCm38mm10GRCm38
MGSCv371146,553,725 - 46,593,080 (+)NCBIGRCm37mm9NCBIm37
MGSCv361146,594,600 - 46,622,036 (+)NCBImm8
Celera1151,321,716 - 51,355,068 (+)NCBICelera
Cytogenetic Map11B1.1NCBI
Havcr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01031,813,819 - 31,860,934 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1031,813,814 - 31,848,379 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01031,632,718 - 31,682,172 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41031,834,519 - 31,858,019 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11031,835,567 - 31,859,066 (+)NCBI
Celera1030,573,361 - 30,596,533 (+)NCBICelera
Cytogenetic Map10q21NCBI
Havcr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540811,047,679 - 11,070,492 (-)NCBIChiLan1.0ChiLan1.0
HAVCR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15158,413,054 - 158,442,481 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5158,413,073 - 158,442,481 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05152,429,337 - 152,459,800 (-)NCBIMhudiblu_PPA_v0panPan3
HAVCR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl453,046,970 - 53,128,952 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl453,012,234 - 53,033,393 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1453,012,223 - 53,066,611 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Havcr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365156,030,402 - 6,051,161 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HAVCR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11666,162,318 - 66,208,868 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21671,949,487 - 71,963,277 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HAVCR1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12359,422,769 - 59,454,183 (-)NCBI
ChlSab1.1 Ensembl2359,423,334 - 59,453,531 (-)Ensembl
Havcr1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473332,284,793 - 32,310,980 (+)NCBI

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:737
Count of miRNA genes:367
Interacting mature miRNAs:386
Transcripts:ENST00000339252, ENST00000425854, ENST00000517644, ENST00000518745, ENST00000522693, ENST00000523175, ENST00000544197
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 23 21 21 8 21 1 1 142 20 38 2
Low 279 267 91 61 405 63 259 11 135 165 397 290 1 167 101
Below cutoff 1594 2157 1173 405 1111 280 3067 1405 2894 93 643 982 126 957 2026 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NG_017001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001173393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001308156 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_012206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011534515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017009339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024446019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024446020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024446021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024446022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024446023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024446024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB607987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC026777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF043724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK298259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW604297 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC013325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG752287 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR457114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA378449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA384612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HQ412639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HQ412640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HQ412641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JX049978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000339252   ⟹   ENSP00000344844
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5157,029,516 - 157,058,476 (-)Ensembl
RefSeq Acc Id: ENST00000517644
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5157,029,740 - 157,049,149 (-)Ensembl
RefSeq Acc Id: ENST00000518745   ⟹   ENSP00000428422
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5157,052,365 - 157,058,396 (-)Ensembl
RefSeq Acc Id: ENST00000522693   ⟹   ENSP00000428524
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5157,029,413 - 157,059,119 (-)Ensembl
RefSeq Acc Id: ENST00000523175   ⟹   ENSP00000427898
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5157,029,413 - 157,059,116 (-)Ensembl
RefSeq Acc Id: ENST00000625904   ⟹   ENSP00000487363
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5157,029,520 - 157,058,476 (-)Ensembl
RefSeq Acc Id: NM_001173393   ⟹   NP_001166864
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,029,413 - 157,059,116 (-)NCBI
GRCh375156,455,989 - 156,486,130 (-)NCBI
HuRef5151,544,985 - 151,574,299 (-)ENTREZGENE
CHM1_15155,888,828 - 155,918,885 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001308156   ⟹   NP_001295085
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,029,413 - 157,059,116 (-)NCBI
CHM1_15155,888,828 - 155,918,885 (-)NCBI
Sequence:
RefSeq Acc Id: NM_012206   ⟹   NP_036338
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,029,413 - 157,058,241 (-)NCBI
GRCh375156,455,989 - 156,486,130 (-)NCBI
Build 365156,389,109 - 156,418,065 (-)NCBI Archive
HuRef5151,544,985 - 151,574,299 (-)ENTREZGENE
CHM1_15155,888,828 - 155,918,007 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011534515   ⟹   XP_011532817
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,028,383 - 157,052,988 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017009339   ⟹   XP_016864828
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,028,383 - 157,059,126 (-)NCBI
Sequence:
RefSeq Acc Id: XM_024446019   ⟹   XP_024301787
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,028,383 - 157,059,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_024446020   ⟹   XP_024301788
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,028,383 - 157,069,633 (-)NCBI
Sequence:
RefSeq Acc Id: XM_024446021   ⟹   XP_024301789
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,028,383 - 157,069,633 (-)NCBI
Sequence:
RefSeq Acc Id: XM_024446022   ⟹   XP_024301790
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,028,383 - 157,059,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_024446023   ⟹   XP_024301791
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,028,383 - 157,069,633 (-)NCBI
Sequence:
RefSeq Acc Id: XM_024446024   ⟹   XP_024301792
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,029,520 - 157,059,124 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001166864   ⟸   NM_001173393
- Peptide Label: isoform a precursor
- UniProtKB: Q96D42 (UniProtKB/Swiss-Prot),   B4DPB1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_036338   ⟸   NM_012206
- Peptide Label: isoform a precursor
- UniProtKB: Q96D42 (UniProtKB/Swiss-Prot),   B4DPB1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011532817   ⟸   XM_011534515
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: NP_001295085   ⟸   NM_001308156
- Peptide Label: isoform b precursor
- UniProtKB: Q96D42 (UniProtKB/Swiss-Prot),   B4DPB1 (UniProtKB/TrEMBL),   E9PFX0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_016864828   ⟸   XM_017009339
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_024301791   ⟸   XM_024446023
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_024301789   ⟸   XM_024446021
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_024301788   ⟸   XM_024446020
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_024301790   ⟸   XM_024446022
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_024301787   ⟸   XM_024446019
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_024301792   ⟸   XM_024446024
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSP00000428422   ⟸   ENST00000518745
RefSeq Acc Id: ENSP00000487363   ⟸   ENST00000625904
RefSeq Acc Id: ENSP00000344844   ⟸   ENST00000339252
RefSeq Acc Id: ENSP00000428524   ⟸   ENST00000522693
RefSeq Acc Id: ENSP00000427898   ⟸   ENST00000523175
Protein Domains
Ig-like   Ig-like V-type

Promoters
RGD ID:6871382
Promoter ID:EPDNEW_H8856
Type:multiple initiation site
Name:HAVCR1_1
Description:hepatitis A virus cellular receptor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H8857  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,058,455 - 157,058,515EPDNEW
RGD ID:6871384
Promoter ID:EPDNEW_H8857
Type:initiation region
Name:HAVCR1_2
Description:hepatitis A virus cellular receptor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H8856  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh385157,069,407 - 157,069,467EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
HAVCR1, 6-AA INS insertion Ige responsiveness, atopic [RCV000004491] Chr5:5q33.2 pathogenic|affects|protective
GRCh38/hg38 5q32-35.3(chr5:149714592-181272151)x3 copy number gain See cases [RCV000051863] Chr5:149714592..181272151 [GRCh38]
Chr5:149094155..180699152 [GRCh37]
Chr5:149074348..180631758 [NCBI36]
Chr5:5q32-35.3
pathogenic
GRCh38/hg38 5q33.1-34(chr5:152761187-167248053)x1 copy number loss See cases [RCV000052144] Chr5:152761187..167248053 [GRCh38]
Chr5:152140747..166675058 [GRCh37]
Chr5:152120940..166607636 [NCBI36]
Chr5:5q33.1-34
pathogenic
GRCh38/hg38 5q33.1-34(chr5:153195314-164014005)x1 copy number loss See cases [RCV000052145] Chr5:153195314..164014005 [GRCh38]
Chr5:152574874..163441011 [GRCh37]
Chr5:152555067..163373589 [NCBI36]
Chr5:5q33.1-34
pathogenic
GRCh38/hg38 5q33.3(chr5:156991620-157210423)x3 copy number gain See cases [RCV000053315] Chr5:156991620..157210423 [GRCh38]
Chr5:156418631..156637434 [GRCh37]
Chr5:156351209..156570012 [NCBI36]
Chr5:5q33.3
uncertain significance
NM_001173393.2(HAVCR1):c.87T>G (p.Gly29=) single nucleotide variant Malignant melanoma [RCV000061194] Chr5:157055493 [GRCh38]
Chr5:156482504 [GRCh37]
Chr5:156415082 [NCBI36]
Chr5:5q33.3
not provided
GRCh38/hg38 5q33.3-35.3(chr5:156825512-181269805)x3 copy number gain See cases [RCV000133847] Chr5:156825512..181269805 [GRCh38]
Chr5:156252523..180696806 [GRCh37]
Chr5:156185101..180629412 [NCBI36]
Chr5:5q33.3-35.3
pathogenic
GRCh38/hg38 5q33.1-34(chr5:152443869-166104392)x1 copy number loss See cases [RCV000138282] Chr5:152443869..166104392 [GRCh38]
Chr5:151823430..165531397 [GRCh37]
Chr5:151803623..165463975 [NCBI36]
Chr5:5q33.1-34
pathogenic
GRCh37/hg19 5q33.2-35.1(chr5:154886174-169757448)x1 copy number loss See cases [RCV000240059] Chr5:154886174..169757448 [GRCh37]
Chr5:5q33.2-35.1
pathogenic
GRCh37/hg19 5q15-35.3(chr5:94844077-178830410)x3 copy number gain not provided [RCV000487658] Chr5:94844077..178830410 [GRCh37]
Chr5:5q15-35.3
likely benign
GRCh37/hg19 5q23.3-33.3(chr5:130125085-157574910)x3 copy number gain See cases [RCV000449349] Chr5:130125085..157574910 [GRCh37]
Chr5:5q23.3-33.3
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:113577-180719789) copy number gain See cases [RCV000510723] Chr5:113577..180719789 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5q21.3-35.3(chr5:106716357-180687338)x3 copy number gain See cases [RCV000448245] Chr5:106716357..180687338 [GRCh37]
Chr5:5q21.3-35.3
pathogenic
NM_001173393.3(HAVCR1):c.476_477insAAC (p.Thr160dup) insertion not provided [RCV000946893]|not specified [RCV000455545] Chr5:157052557..157052558 [GRCh38]
Chr5:156479568..156479569 [GRCh37]
Chr5:5q33.3
benign
GRCh37/hg19 5p15.1-q35.2(chr5:17628741-176575720)x1 copy number loss See cases [RCV000511978] Chr5:17628741..176575720 [GRCh37]
Chr5:5p15.1-q35.2
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:113577-180719789)x3 copy number gain See cases [RCV000512039] Chr5:113577..180719789 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:25328-180693344)x3 copy number gain not provided [RCV000744323] Chr5:25328..180693344 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:13648-180905029)x3 copy number gain not provided [RCV000744317] Chr5:13648..180905029 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5q33.2-35.3(chr5:155344802-180693344)x3 copy number gain not provided [RCV000745284] Chr5:155344802..180693344 [GRCh37]
Chr5:5q33.2-35.3
pathogenic
GRCh37/hg19 5q33.3(chr5:156460095-156469808)x1 copy number loss not provided [RCV000745285] Chr5:156460095..156469808 [GRCh37]
Chr5:5q33.3
benign
NM_001173393.3(HAVCR1):c.557C>T (p.Thr186Met) single nucleotide variant not provided [RCV000965194] Chr5:157052477 [GRCh38]
Chr5:156479488 [GRCh37]
Chr5:5q33.3
benign
NM_001173393.3(HAVCR1):c.581C>T (p.Thr194Met) single nucleotide variant not provided [RCV000948719] Chr5:157052453 [GRCh38]
Chr5:156479464 [GRCh37]
Chr5:5q33.3
benign
NM_001173393.3(HAVCR1):c.473_487del (p.Met158_Pro162del) deletion not provided [RCV000948720] Chr5:157052547..157052561 [GRCh38]
Chr5:156479558..156479572 [GRCh37]
Chr5:5q33.3
benign
NM_001173393.3(HAVCR1):c.150C>T (p.Gly50=) single nucleotide variant not provided [RCV000971521] Chr5:157055430 [GRCh38]
Chr5:156482441 [GRCh37]
Chr5:5q33.3
benign
NM_001173393.3(HAVCR1):c.295G>C (p.Asp99His) single nucleotide variant not provided [RCV000960032] Chr5:157055285 [GRCh38]
Chr5:156482296 [GRCh37]
Chr5:5q33.3
benign
GRCh37/hg19 5q33.3-35.1(chr5:156347980-169959880)x1 copy number loss not provided [RCV001005746] Chr5:156347980..169959880 [GRCh37]
Chr5:5q33.3-35.1
pathogenic
NM_001173393.3(HAVCR1):c.204C>T (p.His68=) single nucleotide variant not provided [RCV000958832] Chr5:157055376 [GRCh38]
Chr5:156482387 [GRCh37]
Chr5:5q33.3
benign
NM_001173393.3(HAVCR1):c.425C>G (p.Thr142Arg) single nucleotide variant not provided [RCV000891171] Chr5:157052609 [GRCh38]
Chr5:156479620 [GRCh37]
Chr5:5q33.3
likely benign

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:17866 AgrOrtholog
COSMIC HAVCR1 COSMIC
Ensembl Genes ENSG00000113249 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000344844 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000427898 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000428422 UniProtKB/TrEMBL
  ENSP00000428524 ENTREZGENE, UniProtKB/TrEMBL
  ENSP00000487363 UniProtKB/TrEMBL
Ensembl Transcript ENST00000339252 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000518745 UniProtKB/TrEMBL
  ENST00000522693 ENTREZGENE, UniProtKB/TrEMBL
  ENST00000523175 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000625904 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000113249 GTEx
HGNC ID HGNC:17866 ENTREZGENE
Human Proteome Map HAVCR1 Human Proteome Map
InterPro Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:26762 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 26762 ENTREZGENE
OMIM 606518 OMIM
Pfam V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB HAVCR1 RGD, PharmGKB
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_MHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Hs.129711 ENTREZGENE
UniProt B4DPB1 ENTREZGENE, UniProtKB/TrEMBL
  D3DQJ1_HUMAN UniProtKB/TrEMBL
  E5RIF6_HUMAN UniProtKB/TrEMBL
  E9PFX0 ENTREZGENE, UniProtKB/TrEMBL
  F1CME6_HUMAN UniProtKB/TrEMBL
  F1CME7_HUMAN UniProtKB/TrEMBL
  F1CME8_HUMAN UniProtKB/TrEMBL
  HAVR1_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary O43656 UniProtKB/Swiss-Prot