Havcr2 (hepatitis A virus cellular receptor 2) - Rat Genome Database

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Gene: Havcr2 (hepatitis A virus cellular receptor 2) Rattus norvegicus
Analyze
Symbol: Havcr2
Name: hepatitis A virus cellular receptor 2
RGD ID: 1305233
Description: Predicted to enable metal ion binding activity. Predicted to be involved in several processes, including regulation of cytokine production; regulation of defense response; and regulation of leukocyte activation. Located in cell surface. Biomarker of transient cerebral ischemia. Human ortholog(s) of this gene implicated in hepatocellular carcinoma and renal cell carcinoma. Orthologous to human HAVCR2 (hepatitis A virus cellular receptor 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: HAVcr-2; hepatitis A virus cellular receptor 2 homolog; LOC363578; T cell immunoglobulin mucin-3; T-cell immunoglobulin and mucin domain-containing protein 3; T-cell immunoglobulin mucin receptor 3; T-cell membrane protein 3; TIM-3; tim3; TIMD-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81031,383,801 - 31,415,334 (+)NCBIGRCr8
mRatBN7.21030,882,484 - 30,914,018 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1030,882,606 - 30,909,137 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1035,610,204 - 35,636,731 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0104,148,656 - 4,175,185 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01030,585,018 - 30,612,066 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01031,561,838 - 31,590,624 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1031,561,895 - 31,588,943 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01031,376,989 - 31,404,231 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41031,585,703 - 31,610,825 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11031,579,175 - 31,610,030 (+)NCBI
Celera1030,333,452 - 30,358,912 (+)NCBICelera
Cytogenetic Map10q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive immune response  (IEA)
biological_process  (ND)
cellular response to lipopolysaccharide  (ISO)
defense response to Gram-positive bacterium  (ISO)
inflammatory response  (IEA)
innate immune response  (IEA)
macrophage activation involved in immune response  (ISO)
maternal process involved in female pregnancy  (ISO)
natural killer cell tolerance induction  (ISO)
negative regulation of defense response to bacterium  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of granulocyte colony-stimulating factor production  (ISO)
negative regulation of immune response to tumor cell  (ISO)
negative regulation of immunological synapse formation  (ISO)
negative regulation of innate immune response  (ISO)
negative regulation of interferon-alpha production  (ISO)
negative regulation of interleukin-2 production  (ISO)
negative regulation of interleukin-3 production  (ISO)
negative regulation of interleukin-6 production  (ISO)
negative regulation of myeloid dendritic cell activation  (ISO)
negative regulation of natural killer cell activation  (ISO)
negative regulation of natural killer cell mediated cytotoxicity directed against tumor cell target  (ISO)
negative regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell  (ISO)
negative regulation of T cell proliferation  (ISO)
negative regulation of T-helper 1 type immune response  (ISO)
negative regulation of tumor necrosis factor production  (ISO)
negative regulation of type I interferon production  (ISO)
negative regulation of type II interferon production  (ISO)
positive regulation of chemokine production  (ISO)
positive regulation of cytokine production  (ISO)
positive regulation of defense response to bacterium  (ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of innate immune response  (ISO)
positive regulation of interleukin-1 production  (ISO)
positive regulation of interleukin-4 production  (ISO)
positive regulation of macrophage activation  (ISO)
positive regulation of non-canonical NF-kappaB signal transduction  (ISO)
positive regulation of T cell proliferation  (ISO)
positive regulation of tumor necrosis factor production  (ISO)
positive regulation of type II interferon production  (ISO)
regulation of tolerance induction dependent upon immune response  (ISO)
regulation of transcription by RNA polymerase II  (IBA,IEA)
toll-like receptor 3 signaling pathway  (ISO)
toll-like receptor 7 signaling pathway  (ISO)
toll-like receptor 9 signaling pathway  (ISO)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. T-cell immunoglobulin- and mucin-domain-containing molecule 3 gene polymorphisms and renal cell carcinoma. Cai C, etal., DNA Cell Biol. 2012 Jul;31(7):1285-9. doi: 10.1089/dna.2012.1625. Epub 2012 Apr 3.
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. Expression of T cell immunoglobulin- and mucin-domain-containing molecules-1 and -3 (TIM-1 and -3) in the rat nervous and immune systems. Gielen AW, etal., J Neuroimmunol. 2005 Jul;164(1-2):93-104.
4. Association of atopy and eczema with polymorphisms in T-cell immunoglobulin domain and mucin domain-IL-2-inducible T-cell kinase gene cluster in chromosome 5 q 33. Graves PE, etal., J Allergy Clin Immunol. 2005 Sep;116(3):650-6.
5. Th2-driven, allergen-induced airway inflammation is reduced after treatment with anti-Tim-3 antibody in vivo. Kearley J, etal., J Exp Med. 2007 Jun 11;204(6):1289-94. Epub 2007 May 21.
6. Genetic polymorphisms of immune checkpoint proteins PD-1 and TIM-3 are associated with survival of patients with hepatitis B virus-related hepatocellular carcinoma. Li Z, etal., Oncotarget. 2016 May 3;7(18):26168-80. doi: 10.18632/oncotarget.8435.
7. Sequential monitoring of TIM-3 gene expression in peripheral blood for diagnostic and prognostic evaluation of acute rejection in renal graft recipients. Luo Y, etal., Transplant Proc. 2011 Dec;43(10):3669-74. doi: 10.1016/j.transproceed.2011.08.106.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Th1-specific cell surface protein Tim-3 regulates macrophage activation and severity of an autoimmune disease. Monney L, etal., Nature. 2002 Jan 31;415(6871):536-41.
10. Regulation of osteoclastogenesis through Tim-3: possible involvement of the Tim-3/galectin-9 system in the modulation of inflammatory bone destruction. Moriyama K, etal., Lab Invest. 2014 Nov;94(11):1200-11. doi: 10.1038/labinvest.2014.107. Epub 2014 Sep 29.
11. Increased expression of Tim-3 and its ligand Galectin-9 in rat allografts during acute rejection episodes. Qiao X, etal., Biochem Biophys Res Commun. 2014 Mar 14;445(3):542-8. doi: 10.1016/j.bbrc.2014.01.167. Epub 2014 Feb 4.
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
14. Dysregulation of TIM-3-galectin-9 pathway in the cystic fibrosis airways. Vega-Carrascal I, etal., J Immunol. 2011 Mar 1;186(5):2897-909. Epub 2011 Jan 24.
15. Elevated expression of Tim-3 on CD8 T cells correlates with disease severity of pulmonary tuberculosis. Wang X, etal., J Infect. 2011 Apr;62(4):292-300. Epub 2011 Mar 5.
16. Tim-3 cell signaling and iNOS are involved in the protective effects of ischemic postconditioning against focal ischemia in rats. Wei D, etal., Metab Brain Dis. 2014 Apr 29.
17. Distinct expression of Tim-3 during different stages of rat experimental autoimmune neuritis. Zhang ZY, etal., Brain Res Bull. 2011 Oct 10;86(3-4):229-34. doi: 10.1016/j.brainresbull.2011.07.005. Epub 2011 Jul 18.
Additional References at PubMed
PMID:14556006   PMID:15020066   PMID:18006747   PMID:20937702   PMID:22842346   PMID:23376485   PMID:24337741   PMID:24567532   PMID:25065622   PMID:25337993   PMID:25363763   PMID:25578313  
PMID:26492563   PMID:30677253   PMID:33168786   PMID:34847253  


Genomics

Comparative Map Data
Havcr2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81031,383,801 - 31,415,334 (+)NCBIGRCr8
mRatBN7.21030,882,484 - 30,914,018 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1030,882,606 - 30,909,137 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1035,610,204 - 35,636,731 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0104,148,656 - 4,175,185 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01030,585,018 - 30,612,066 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01031,561,838 - 31,590,624 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1031,561,895 - 31,588,943 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01031,376,989 - 31,404,231 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41031,585,703 - 31,610,825 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11031,579,175 - 31,610,030 (+)NCBI
Celera1030,333,452 - 30,358,912 (+)NCBICelera
Cytogenetic Map10q21NCBI
HAVCR2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385157,085,832 - 157,109,044 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5157,085,422 - 157,142,869 (-)EnsemblGRCh38hg38GRCh38
GRCh375156,512,843 - 156,536,055 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365156,445,421 - 156,468,716 (-)NCBINCBI36Build 36hg18NCBI36
Build 345156,445,420 - 156,468,716NCBI
Celera5152,539,374 - 152,562,664 (-)NCBICelera
Cytogenetic Map5q33.3NCBI
HuRef5151,601,069 - 151,624,237 (-)NCBIHuRef
CHM1_15155,945,610 - 155,968,997 (-)NCBICHM1_1
T2T-CHM13v2.05157,604,811 - 157,627,988 (-)NCBIT2T-CHM13v2.0
Havcr2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391146,345,758 - 46,372,082 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1146,345,762 - 46,372,082 (+)EnsemblGRCm39 Ensembl
GRCm381146,454,931 - 46,481,255 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1146,454,935 - 46,481,255 (+)EnsemblGRCm38mm10GRCm38
MGSCv371146,268,433 - 46,294,757 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361146,298,358 - 46,324,678 (+)NCBIMGSCv36mm8
Celera1151,038,900 - 51,067,047 (+)NCBICelera
Cytogenetic Map11B1.1NCBI
cM Map1127.9NCBI
Havcr2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540811,291,937 - 11,311,320 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540811,289,920 - 11,311,216 (-)NCBIChiLan1.0ChiLan1.0
HAVCR2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24152,280,537 - 152,312,503 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15150,420,084 - 150,447,697 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05152,486,125 - 152,514,004 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15159,107,938 - 159,134,973 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5159,108,915 - 159,131,007 (-)Ensemblpanpan1.1panPan2
HAVCR2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1453,018,990 - 53,032,035 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl453,012,234 - 53,033,393 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha452,911,200 - 52,924,236 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0453,440,445 - 53,471,049 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl453,455,568 - 53,500,924 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1453,281,860 - 53,294,897 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0453,388,880 - 53,401,897 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0453,905,760 - 53,918,797 (+)NCBIUU_Cfam_GSD_1.0
Havcr2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213107,551,249 - 107,566,118 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365156,001,324 - 6,015,407 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HAVCR2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1666,139,535 - 66,160,538 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11666,138,157 - 66,160,568 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21671,988,583 - 72,008,100 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HAVCR2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12359,479,794 - 59,501,532 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2359,475,826 - 59,500,836 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603418,129,105 - 18,151,966 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Havcr2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473332,521,318 - 32,527,499 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Havcr2
224 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:479
Count of miRNA genes:259
Interacting mature miRNAs:297
Transcripts:ENSRNOT00000048485
Prediction methods:Microtar, Miranda
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
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum immunoglobulin E level (CMO:0002101)102291826836400810Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2298480Eau7Experimental allergic uveoretinitis QTL 70.0049uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)102795762634490668Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat

Markers in Region
RH127592  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21030,857,613 - 30,857,828 (+)MAPPERmRatBN7.2
Rnor_6.01031,536,146 - 31,536,360NCBIRnor6.0
Rnor_5.01031,351,592 - 31,351,806UniSTSRnor5.0
RGSC_v3.41031,561,004 - 31,561,218UniSTSRGSC3.4
Celera1030,309,530 - 30,309,744UniSTS
RH 3.4 Map10340.4UniSTS
Cytogenetic Map10q21UniSTS


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
Low 3 13 5 19 5 68 2 8 10
Below cutoff 31 35 28 28 6 8 6 25 29 1 6

Sequence


RefSeq Acc Id: ENSRNOT00000048485   ⟹   ENSRNOP00000048351
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1030,882,606 - 30,909,137 (+)Ensembl
Rnor_6.0 Ensembl1031,561,895 - 31,588,943 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108848   ⟹   ENSRNOP00000084467
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1030,882,606 - 30,909,137 (+)Ensembl
RefSeq Acc Id: NM_001100762   ⟹   NP_001094232
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,383,925 - 31,410,452 (+)NCBI
mRatBN7.21030,882,606 - 30,909,137 (+)NCBI
Rnor_6.01031,561,895 - 31,588,943 (+)NCBI
Rnor_5.01031,376,989 - 31,404,231 (+)NCBI
RGSC_v3.41031,585,703 - 31,610,825 (+)RGD
Celera1030,333,452 - 30,358,912 (+)RGD
Sequence:
RefSeq Acc Id: XM_039086454   ⟹   XP_038942382
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,383,806 - 31,415,334 (+)NCBI
mRatBN7.21030,882,488 - 30,914,018 (+)NCBI
RefSeq Acc Id: XM_039086455   ⟹   XP_038942383
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,383,801 - 31,415,334 (+)NCBI
mRatBN7.21030,882,484 - 30,914,018 (+)NCBI
RefSeq Acc Id: XM_063269493   ⟹   XP_063125563
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,383,808 - 31,412,680 (+)NCBI
RefSeq Acc Id: XM_063269494   ⟹   XP_063125564
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,383,803 - 31,415,334 (+)NCBI
RefSeq Acc Id: XM_063269495   ⟹   XP_063125565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,383,812 - 31,412,680 (+)NCBI
RefSeq Acc Id: NP_001094232   ⟸   NM_001100762
- Peptide Label: precursor
- UniProtKB: G3V9I4 (UniProtKB/Swiss-Prot),   P0C0K5 (UniProtKB/Swiss-Prot),   A0A8I5ZXZ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000048351   ⟸   ENSRNOT00000048485
RefSeq Acc Id: XP_038942383   ⟸   XM_039086455
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038942382   ⟸   XM_039086454
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000084467   ⟸   ENSRNOT00000108848
RefSeq Acc Id: XP_063125564   ⟸   XM_063269494
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063125563   ⟸   XM_063269493
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063125565   ⟸   XM_063269495
- Peptide Label: isoform X5
Protein Domains
Ig-like   Ig-like V-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P0C0K5-F1-model_v2 AlphaFold P0C0K5 1-282 view protein structure

Transcriptome

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

Promoters
RGD ID:13697127
Promoter ID:EPDNEW_R7652
Type:single initiation site
Name:Havcr2_1
Description:hepatitis A virus cellular receptor 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01031,561,904 - 31,561,964EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305233 AgrOrtholog
BioCyc Gene G2FUF-25366 BioCyc
Ensembl Genes ENSRNOG00000031443 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055018586 UniProtKB/Swiss-Prot
  ENSRNOG00060021352 UniProtKB/Swiss-Prot
  ENSRNOG00065005701 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000048485 ENTREZGENE
  ENSRNOT00000048485.3 UniProtKB/Swiss-Prot
  ENSRNOT00000108848.1 UniProtKB/TrEMBL
  ENSRNOT00055031627 UniProtKB/Swiss-Prot
  ENSRNOT00060037030 UniProtKB/Swiss-Prot
  ENSRNOT00065008512 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:363578 UniProtKB/Swiss-Prot
NCBI Gene 363578 ENTREZGENE
PANTHER HEPATITIS A VIRUS CELLULAR RECEPTOR 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  T-CELL IMMUNOGLOBULIN AND MUCIN DOMAIN CONTAINING TIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Havcr2 PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031443 RatGTEx
  ENSRNOG00055018586 RatGTEx
  ENSRNOG00060021352 RatGTEx
  ENSRNOG00065005701 RatGTEx
SMART SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZXZ2 ENTREZGENE, UniProtKB/TrEMBL
  G3V9I4 ENTREZGENE
  HAVR2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary G3V9I4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Havcr2  hepatitis A virus cellular receptor 2  Havcr2_predicted  hepatitis A virus cellular receptor 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Havcr2_predicted  hepatitis A virus cellular receptor 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED