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Havcr1 hepatitis A virus cellular receptor 1 [ Mus musculus (house mouse) ]

Gene ID: 171283, updated on 13-Jan-2025

Summary

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Official Symbol
Havcr1provided by MGI
Official Full Name
hepatitis A virus cellular receptor 1provided by MGI
Primary source
MGI:MGI:2159680
See related
Ensembl:ENSMUSG00000040405 AllianceGenome:MGI:2159680
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Tim1; KIM-1; TIM-1; Timd1
Summary
Enables phosphatidylserine binding activity. Acts upstream of or within positive regulation of mast cell activation; response to lipopolysaccharide; and response to wounding. Located in brush border and cell surface. Is expressed in aorta-gonad-mesonephros; brain; genitourinary system; liver; and lung. Human ortholog(s) of this gene implicated in atopic dermatitis. Orthologous to human HAVCR1 (hepatitis A virus cellular receptor 1). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in kidney adult (RPKM 7.2), placenta adult (RPKM 0.8) and 2 other tissues See more
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Genomic context

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See Havcr1 in Genome Data Viewer
Location:
11 B1.1; 11 28.08 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (46630644..46670405)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (46739822..46779578)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene T cell immunoglobulin and mucin domain containing 2 Neighboring gene STARR-seq mESC enhancer starr_29333 Neighboring gene predicted gene 12174 Neighboring gene predicted gene, 39817 Neighboring gene STARR-seq mESC enhancer starr_29336 Neighboring gene T cell immunoglobulin and mucin domain containing 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. T-cell immunoglobulin and mucin domain 1 deficiency eliminates airway hyperreactivity triggered by the recognition of airway cell death. Kim HY, et al. J Allergy Clin Immunol, 2013 Aug. PMID 23672783, Free PMC Article
  2. TIM-1 signaling is required for maintenance and induction of regulatory B cells. Yeung MY, et al. Am J Transplant, 2015 Apr. PMID 25645598, Free PMC Article
  3. KIM-1-mediated phagocytosis reduces acute injury to the kidney. Yang L, et al. J Clin Invest, 2015 Apr. PMID 25751064, Free PMC Article
  4. The emerging role of T cell immunoglobulin mucin-1 in the mechanism of liver ischemia and reperfusion injury in the mouse. Uchida Y, et al. Hepatology, 2010 Apr. PMID 20091883, Free PMC Article
  5. Tim-1 signaling substitutes for conventional signal 1 and requires costimulation to induce T cell proliferation. Mariat C, et al. J Immunol, 2009 Feb 1. PMID 19155484, Free PMC Article

See all (97) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A renal YY1-KIM1-DR5 axis regulates the progression of acute kidney injury.
    Title: A renal YY1-KIM1-DR5 axis regulates the progression of acute kidney injury.
  2. KIM-1 augments hypoxia-induced tubulointerstitial inflammation through uptake of small extracellular vesicles by tubular epithelial cells.
    Title: KIM-1 augments hypoxia-induced tubulointerstitial inflammation through uptake of small extracellular vesicles by tubular epithelial cells.
  3. T-Cell Immunoglobulin and Mucin Domain 1 (TIM-1) Is a Functional Entry Factor for Tick-Borne Encephalitis Virus.
    Title: T-Cell Immunoglobulin and Mucin Domain 1 (TIM-1) Is a Functional Entry Factor for Tick-Borne Encephalitis Virus.
  4. Tim-1 mucin domain-mutant mice display exacerbated atherosclerosis.
    Title: Tim-1 mucin domain-mutant mice display exacerbated atherosclerosis.
  5. Acute Kidney Injury Associates with Long-Term Increases in Plasma TNFR1, TNFR2, and KIM-1: Findings from the CRIC Study.
    Title: Acute Kidney Injury Associates with Long-Term Increases in Plasma TNFR1, TNFR2, and KIM-1: Findings from the CRIC Study.
  6. Kidney injury molecule-1 inhibits metastasis of renal cell carcinoma.
    Title: Kidney injury molecule-1 inhibits metastasis of renal cell carcinoma.
  7. Rutin coated gold nanoparticles prevent rhabdomyolysis-induced kidney injury via down-regulation of NF-kB, iNOS, IL-6 and up-regulation of HO-1 and Kim-1 genes in mice.
    Title: Rutin coated gold nanoparticles prevent rhabdomyolysis-induced kidney injury via down-regulation of NF-kB, iNOS, IL-6 and up-regulation of HO-1 and Kim-1 genes in mice.
  8. KIM-1-mediated anti-inflammatory activity is preserved by MUC1 induction in the proximal tubule during ischemia-reperfusion injury.
    Title: KIM-1-mediated anti-inflammatory activity is preserved by MUC1 induction in the proximal tubule during ischemia-reperfusion injury.
  9. Mapping and functional characterization of murine kidney injury molecule-1 proteolytic cleavage site.
    Title: Mapping and functional characterization of murine kidney injury molecule-1 proteolytic cleavage site.
  10. These studies provide evidence that at late times during Ebola virus glycoprotein/recombinant vesiculovirus infection, TIM-1 increased virus load and associated mortality, consistent with an important role of this receptor in virus entry.
    Title: TIM-1 serves as a receptor for Ebola virus in vivo, enhancing viremia and pathogenesis.
Submit: New GeneRIF Correction See all GeneRIFs (62)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables phosphatidylserine binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables phosphatidylserine binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables virus receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables virus receptor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in phagocytosis, engulfment IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in phagocytosis, engulfment ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of mast cell activation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of mast cell activation IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within response to lipopolysaccharide IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within response to wounding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in apical plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in brush border IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in cell surface IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
  
located_in extracellular space ISO
Inferred from Sequence Orthology
more info
  
located_in motile cilium ISO
Inferred from Sequence Orthology
more info
  
located_in phagocytic vesicle ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
hepatitis A virus cellular receptor 1 homolog
Names
HAVcr-1
T-cell immunoglobulin and mucin domain containing 1
T-cell immunoglobulin mucin receptor 1
TIMD-1
kidney injury molecule 1
t cell immunoglobulin and mucin domain-containing protein 1
t cell membrane protein 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001166631.1 → NP_001160103.1  hepatitis A virus cellular receptor 1 homolog isoform b precursor

    See identical proteins and their annotated locations for NP_001160103.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 2 and 3 both encode the same isoform.
    Source sequence(s)
    AK133466, BC053400
    Consensus CDS
    CCDS48778.1
    UniProtKB/Swiss-Prot
    Q5QNS5, Q7TPU2, Q8VIM1, Q8VIM2
    UniProtKB/TrEMBL
    Q3V033
    Related
    ENSMUSP00000104846.2, ENSMUST00000109223.8
    Conserved Domains (2) summary
    smart00410
    Location:25 → 127
    IG_like; Immunoglobulin like
    pfam07686
    Location:24 → 110
    V-set; Immunoglobulin V-set domain

  2. NM_001166632.1 → NP_001160104.1  hepatitis A virus cellular receptor 1 homolog isoform b precursor

    See identical proteins and their annotated locations for NP_001160104.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 2 and 3 both encode the same isoform.
    Source sequence(s)
    BC053400, CA551363
    Consensus CDS
    CCDS48778.1
    UniProtKB/Swiss-Prot
    Q5QNS5, Q7TPU2, Q8VIM1, Q8VIM2
    UniProtKB/TrEMBL
    Q3V033
    Related
    ENSMUSP00000080503.5, ENSMUST00000081819.11
    Conserved Domains (2) summary
    smart00410
    Location:25 → 127
    IG_like; Immunoglobulin like
    pfam07686
    Location:24 → 110
    V-set; Immunoglobulin V-set domain

  3. NM_134248.2 → NP_599009.2  hepatitis A virus cellular receptor 1 homolog isoform a precursor

    See identical proteins and their annotated locations for NP_599009.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a). The 5' UTR of this transcript has not been determined.
    Source sequence(s)
    AL669892, BC053400, CA551363
    Consensus CDS
    CCDS24583.1
    UniProtKB/Swiss-Prot
    Q5QNS5, Q7TPU2, Q8VIM1, Q8VIM2
    UniProtKB/TrEMBL
    A0A0A0MQ86
    Related
    ENSMUSP00000043827.5, ENSMUST00000047568.5
    Conserved Domains (1) summary
    pfam07686
    Location:24 → 122
    V-set; Immunoglobulin V-set domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    46630644..46670405
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006532393.4 → XP_006532456.1  hepatitis A virus cellular receptor 1 homolog isoform X2

    See identical proteins and their annotated locations for XP_006532456.1

    UniProtKB/Swiss-Prot
    Q5QNS5, Q7TPU2, Q8VIM1, Q8VIM2
    UniProtKB/TrEMBL
    A0A0A0MQ86
    Conserved Domains (1) summary
    pfam07686
    Location:24 → 122
    V-set; Immunoglobulin V-set domain

  2. XM_006532392.4 → XP_006532455.1  hepatitis A virus cellular receptor 1 homolog isoform X1

    See identical proteins and their annotated locations for XP_006532455.1

    UniProtKB/Swiss-Prot
    Q5QNS5, Q7TPU2, Q8VIM1, Q8VIM2
    Conserved Domains (1) summary
    pfam07686
    Location:24 → 122
    V-set; Immunoglobulin V-set domain

  3. XM_011248784.3 → XP_011247086.1  hepatitis A virus cellular receptor 1 homolog isoform X3

    Conserved Domains (1) summary
    pfam07686
    Location:24 → 122
    V-set; Immunoglobulin V-set domain

  4. XM_030245623.2 → XP_030101483.1  hepatitis A virus cellular receptor 1 homolog isoform X2

    UniProtKB/Swiss-Prot
    Q5QNS5, Q7TPU2, Q8VIM1, Q8VIM2
    UniProtKB/TrEMBL
    A0A0A0MQ86
    Conserved Domains (1) summary
    pfam07686
    Location:24 → 122
    V-set; Immunoglobulin V-set domain

  5. XM_011248783.2 → XP_011247085.1  hepatitis A virus cellular receptor 1 homolog isoform X1

    See identical proteins and their annotated locations for XP_011247085.1

    UniProtKB/Swiss-Prot
    Q5QNS5, Q7TPU2, Q8VIM1, Q8VIM2
    Conserved Domains (1) summary
    pfam07686
    Location:24 → 122
    V-set; Immunoglobulin V-set domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5QNS5.2 GenPept UniProtKB/Swiss-Prot:Q5QNS5

Gene LinkOut

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