HAVCR2 Gene
protein-coding GIFtS: 54
GCID: GC05M156512
|
|
hepatitis A virus cellular receptor 2
| |
Aliases
for HAVCR2 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Hepatitis A Virus Cellular Receptor 21 2 | | T-Cell Membrane Protein 32 3 | | TIM31 2 3 5 | | FLJ144281 | | TIMD31 2 3 | | KIM-32 | | Tim-31 2 | | Kidney Injury Molecule-32 | | HAVcr-22 3 | | T Cell Immunoglobulin Mucin 32 | | TIMD-32 3 | | T Cell Immunoglobulin Mucin-32 | | T-Cell Immunoglobulin And Mucin Domain-Containing Protein 32 3 | | TIM-33 |
Export aliases for HAVCR2 gene to outside databasesPrevious GC identifers: GC05M157063 GC05M156448 GC05M156493 GC05M156445 GC05M151601 |
Summaries
for HAVCR2 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for HAVCR2:
The protein encoded by this gene belongs to the immunoglobulin superfamily, and TIM family of proteins. CD4-positive Thelper lymphocytes can be divided into types 1 (Th1) and 2 (Th2) on the basis of their cytokine secretion patterns.Th1 cells are involved in cell-mediated immunity to intracellular pathogens and delayed-type hypersensitivityreactions, whereas, Th2 cells are involved in the control of extracellular helminthic infections and the promotion ofatopic and allergic diseases. This protein is a Th1-specific cell surface protein that regulates macrophageactivation, and inhibits Th1-mediated auto- and alloimmune responses, and promotes immunological tolerance. (providedby RefSeq, Sep 2011)
UniProtKB/Swiss-Prot: HAVR2_HUMAN, Q8TDQ0Function: Regulates macrophage activation. Inhibits T-helper type 1 lymphocyte (Th1)-mediated auto- and alloimmuneresponses and promotes immunological tolerance. May be also involved in T-cell homing. Receptor for LGALS9
Gene Wiki entry for HAVCR2
|
Genomic Views
for HAVCR2 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000005.9 NC_018916.1 NT_023133.13
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the HAVCR2 gene promoter:
HFH-3 AP-2rep C/EBPbeta XBP-1 Roaz GATA-2 FOXI1 FOXJ2 (long isoform) HFH-1 FOXJ2
Other transcription factors
Search SABiosciences Chromatin IP Primers for HAVCR2
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HAVCR2 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 5q33.3 Ensembl cytogenetic band: 5q33.3 HGNC cytogenetic band: 5q34HAVCR2 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 5 GeneLoc Exon Structure GeneLoc location for GC05M156512: view genomic region
(about GC identifiers)
Start:
|
156,512,843 bp from pter |
End:
|
156,569,880 bp from pter |
Size:
|
57,038 bases |
Orientation:
|
minus strand |
|
Proteins
for HAVCR2 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: HAVR2_HUMAN, Q8TDQ0 (See
protein sequence)Recommended Name: Hepatitis A virus cellular receptor 2 precursor Size: 301 amino acids; 33394 Da
Subcellular location: Membrane; Single-pass type I membrane protein (Potential)
Secondary accessions: B2RAY2 Q8WW60 Q96K94Alternative splicing: 2 isoforms: Q8TDQ0-1 Q8TDQ0-2 Explore the universe of human proteins at neXtProt for HAVCR2: NX_Q8TDQ0
Post-translational modifications:
O-glycosylated with core 1 or possibly core 8 glycans1
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8TDQ0
HAVCR2 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_116171.3
ENSEMBL proteins: ENSP00000312002 ENSP00000430873 ENSP00000430328
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0016021 | integral to membrane |
IEA | -- |
HAVCR2 for ontologies About GeneDecksing
HAVCR2 Antibody Products:
Assay Products for HAVCR2: |
Protein
Domains /
Families
for HAVCR2 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
HAVCR2 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8TDQ0ProtoNet protein and cluster: Q8TDQ0 1 Blocks protein family: IPB003599 Immunoglobulin subtype
UniProtKB/Swiss-Prot: HAVR2_HUMAN, Q8TDQ0Similarity: Belongs to the immunoglobulin superfamily. TIM familySimilarity: Contains 1 Ig-like V-type (immunoglobulin-like) domain |
Function
for HAVCR2 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: HAVR2_HUMAN, Q8TDQ0Function: Regulates macrophage activation. Inhibits T-helper type 1 lymphocyte (Th1)-mediated auto- and alloimmuneresponses and promotes immunological tolerance. May be also involved in T-cell homing. Receptor for LGALS9
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HAVCR2 (see all 2)
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HAVCR2 |
2 GenomeRNAi human phenotypes for HAVCR2:
Animal Models:
Mouse knock-out Havcr2tm1Tbs for HAVCR2
5 MGI mutant phenotypes (inferred from 2 alleles ) (MGI details for Havcr2):
HAVCR2 for phenotypes About GeneDecksing
|
Pathways & Interactions
for HAVCR2 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for HAVCR2
|
Drugs & Compounds
for HAVCR2 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for HAVCR2
Search CenterWatch for drugs/clinical trials and news about HAVCR2 / HAVR2
|
Transcripts
for HAVCR2 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for HAVCR2 gene: NM_032782.4 Unigene Cluster for HAVCR2: Hepatitis A virus cellular receptor 2 Hs.710500 [show with all ESTs]Unigene Representative Sequence: NM_0327826 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000307851(uc003lwk.2) ENST00000522593 ENST00000524219 ENST00000521665
ENST00000522902(uc003lwl.3) ENST00000517358
Clone
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OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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Additional cDNA sequence: AF251707.1 AF450242.1 AF450243.1 AK027334.1 AK130144.1 AK314406.1 AY069944.1 BC020843.1 BC063431.1 JX049979.1 6 DOTS entries: DT.431150 DT.97839520 DT.99928688 DT.120827768 DT.95084108 DT.40291503 24/51 AceView cDNA sequences (see all 51): BI906710 BM923617 CA307836 BP340002 AA664217 AI202037 AF450242 BX417090 AF450243 BQ581620 CD710266 BX431364 NM_032782 BP373569 AJ705624 CD640560 AW025572 AK130144 CD522575 BC020843 BP345570 BP344854 AI636449 CD520418
GeneLoc Exon Structure
4 Alternative Splicing Database (ASD) splice patterns (SP) for HAVCR2 About this scheme
| ExUns: | 1 | ^ | 2a | · | 2b | ^ | 3a | · | 3b | ^ | 4 | ^ | 5 | ^ | 6a | · | 6b | ^ | 7 |
|---|
|
| SP1: | | | - | | - | | | | | | | | | | | | | | | | |
| SP2: | | | - | | - | | | | | | - | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for HAVCR2
|
Expression
for HAVCR2 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| HAVCR2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ATTTGCCTGC
About this image
See HAVCR2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for HAVCR2
SOURCE GeneReport for Unigene cluster: Hs.710500
UniProtKB/Swiss-Prot: HAVR2_HUMAN, Q8TDQ0Tissue specificity: T-helper type 1 lymphocyte (Th1)-specific
SABiosciences Expression via Pathway-Focused PCR Arrays including HAVCR2: | Th1/Th2 Response in human mouse rat | | T Helper Cell Differentiation in human mouse rat |
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for HAVCR2
Browse OriGene validated miRNA SYBR primer pairs
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Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HAVCR2 |
Orthologs
for HAVCR2 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for HAVCR2 gene from 3/9 species (see all 9) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
mouse
(Mus musculus) |
Mammalia |
Havcr21 , 5 |
hepatitis A virus cellular receptor 21, 5 |
74.64(n)1
66.79(a)1 |
|
11 (27.90 cM)5
1712851 NM_134250.21 NP_599011.21
464549355 |
chicken
(Gallus gallus) |
Aves |
Q5ZKI8_CHICK6 |
hepatitis A virus cellular receptor 1 |
43(a) |
1 → many |
13(11525677-11573991) |
zebrafish
(Danio rerio) |
Actinopterygii |
timd46 |
T-cell immunoglobulin and mucin domain containing ... |
25(a) |
1 → many |
21(28485046-28494504) |
ENSEMBL Gene Tree for HAVCR2 (if available)
TreeFam Gene Tree for HAVCR2 (if available) |
Paralogs
for HAVCR2 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for HAVCR2 gene
- HAVCR12 TIMD42
1 SIMAP similar gene for HAVCR2 using alignment to 3 protein entries: HAVR2_HUMAN (see all proteins):HAVCR1
HAVCR2 for paralogs About GeneDecksing
|
Genomic Variants
for HAVCR2 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 5 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for HAVCR2 (156512843 - 156569880 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for HAVCR2: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing HAVCR2 |
|
Disorders
/ Diseases
for HAVCR2 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database, Novoseek,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
HAVCR2 for disorders About GeneDecksing
OMIM gene information: 606652
OMIM disorders: --
20/43  diseases for HAVCR2 (see all 43): About MalaCardshepatitis a hepatitis dendritic cell thymoma allergic rhinitis
systemic lupus erythematosus aplastic anemia lupus erythematosus atopic dermatitis
rhinitis chronic lymphocytic leukemia multiple sclerosis allergic asthma
lymphocytic leukemia encephalomyelitis bronchiolitis hodgkin's lymphoma
eczema rheumatoid arthritis asthma pulmonary tuberculosis
2 diseases from the University of Copenhagen DISEASES database for HAVCR2:Epithelial malignant thymoma Prostatic adenoma 8 Novoseek disease relationships for HAVCR2 gene About this table
| Disease |
-log (P-Val) |
Hits |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| autoimmune diseases |
52.4 |
12 |
11823861 (3), 19768575 (2), 15272240 (1), 19332093 (1) (see all 7) |
| asthma |
34.8 |
11 |
15867855 (4), 19494522 (3), 18785518 (2), 15603868 (2) |
| encephalomyelitis |
31.5 |
2 |
15153541 (1), 11823861 (1) |
| allergic rhinitis |
30.9 |
2 |
15603868 (2) |
| allergy |
23.8 |
3 |
17517968 (1), 17665973 (1) |
| multiple sclerosis |
22.7 |
3 |
15153541 (1), 17665973 (1), 19768575 (1) |
| inflammation |
3.35 |
2 |
17513715 (2) |
| tumors |
0 |
3 |
17096021 (3) |
Genetic Association Database (GAD): HAVCR2
Human Genome Epidemiology (HuGE) Navigator: HAVCR2 (23 documents)
Export disorders for HAVCR2 gene to outside databases
|
Publications
for HAVCR2 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for HAVCR2 gene, integrated from 9 sources (see all 109):
(articles sorted by number of sources associating them with HAVCR2) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Th1-specific cell surface protein Tim-3 regulates macrophage activation and severity of an autoimmune disease. (PubMed id 11823861)1, 2, 3, 9 Monney L....Kuchroo V.K. (2002)
- The association of TIM-3 gene polymorphism with atopic disease in Korean population. (PubMed id 15603868)1, 4, 9 Chae S.C....Chung H.T. (2004)
- Genetic variants of the T-cell immunoglobulin mucin 1 but not the T-cell immunoglobulin mucin 3 gene are associated with asthma in an African American population. (PubMed id 15867855)1, 4, 9 Gao P.S....Huang S.K. (2005)
- 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. (PubMed id 16159638)1, 4, 9 Graves P.E....Martinez F.D. (2005)
- The polymorphisms of Th1 cell surface gene Tim-3 are associated in a Korean population with rheumatoid arthritis. (PubMed id 15325803)1, 4, 9 Chae S.-C.... Chung H.-T. (2004)
- The Tim-3 ligand galectin-9 negatively regulates T helper type 1 immunity. (PubMed id 16286920)1, 2 Zhu C.... Kuchroo V.K. (2005)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Tim-3 inhibits T helper type 1-mediated auto- and alloimmune responses and promotes immunological tolerance. (PubMed id 14556005)1, 2 Sanchez-Fueyo A.... Strom T.B. (2003)
- T cell immunoglobulin- and mucin-domain-containing mo lecule-3 (Tim-3) mediates natural killer cell suppression in chronic hepatitis B. (PubMed id 20133006)1, 9 Ju Y....Ma C. (2010)
|
External Searches for HAVCR2 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing HAVCR2 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing HAVCR2 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing HAVCR2 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for HAVCR2 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for HAVCR2 gene:
Search GeneIP for patents involving HAVCR2
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for HAVCR2 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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