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Timd4 T cell immunoglobulin and mucin domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 276891, updated on 22-Jan-2023

Summary

Official Symbol
Timd4provided by MGI
Official Full Name
T cell immunoglobulin and mucin domain containing 4provided by MGI
Primary source
MGI:MGI:2445125
See related
Ensembl:ENSMUSG00000055546 AllianceGenome:MGI:2445125
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
Tim4; TIM-4; B430010N18Rik
Summary
Enables phosphatidylserine binding activity. Acts upstream of or within apoptotic cell clearance. Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in brain; dorsal aorta; liver; lung; and reproductive system. Used to study systemic lupus erythematosus. Orthologous to human TIMD4 (T cell immunoglobulin and mucin domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in spleen adult (RPKM 8.5), mammary gland adult (RPKM 5.8) and 10 other tissues See more
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Genomic context

See Timd4 in Genome Data Viewer
Location:
11; 11 B1.1
Exon count:
10
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (46701613..46735160)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (46810786..46844333)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene hepatitis A virus cellular receptor 1 Neighboring gene predicted gene, 39817 Neighboring gene sarcoglycan, delta (dystrophin-associated glycoprotein) Neighboring gene 40S ribosomal protein S2 pseudogene Neighboring gene predicted gene, 23039

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (4) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables phosphatidylserine binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables phosphatidylserine binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in apoptotic cell clearance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within apoptotic cell clearance IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cytoskeletal rearrangement involved in phagocytosis, engulfment IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
T-cell immunoglobulin and mucin domain-containing protein 4
Names
T-cell immunoglobulin mucin receptor 4
T-cell membrane protein 4
TIMD-4
smuckler
spleen, mucin-containing, knockout of lymphotoxin protein

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_178759.4NP_848874.3  T-cell immunoglobulin and mucin domain-containing protein 4 precursor

    See identical proteins and their annotated locations for NP_848874.3

    Status: VALIDATED

    Source sequence(s)
    AK046560, AK080212, AY376716
    Consensus CDS
    CCDS36137.1
    UniProtKB/Swiss-Prot
    Q6U7R4, Q8CIC7
    Related
    ENSMUSP00000069456.7, ENSMUST00000068877.7
    Conserved Domains (2) summary
    smart00410
    Location:27130
    IG_like; Immunoglobulin like
    pfam07686
    Location:32114
    V-set; Immunoglobulin V-set domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    46701613..46735160
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006533479.4XP_006533542.1  T-cell immunoglobulin and mucin domain-containing protein 4 isoform X1

    Conserved Domains (1) summary
    pfam07686
    Location:24114
    V-set; Immunoglobulin V-set domain
  2. XM_006533480.4XP_006533543.1  T-cell immunoglobulin and mucin domain-containing protein 4 isoform X2

    Conserved Domains (1) summary
    pfam07686
    Location:24114
    V-set; Immunoglobulin V-set domain