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    Thy1 Thy-1 cell surface antigen [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24832, updated on 28-Oct-2024

    Summary

    Official Symbol
    Thy1provided by RGD
    Official Full Name
    Thy-1 cell surface antigenprovided by RGD
    Primary source
    RGD:3860
    See related
    EnsemblRapid:ENSRNOG00000006604 AllianceGenome:RGD:3860
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    CD7
    Summary
    Enables GPI anchor binding activity; GTPase activator activity; and protein kinase binding activity. Involved in several processes, including T cell receptor signaling pathway; focal adhesion assembly; and positive regulation of release of sequestered calcium ion into cytosol. Acts upstream of or within with a positive effect on cell-cell signaling and negative regulation of neuron projection regeneration. Located in several cellular components, including growth cone; neuron projection membrane; and neuronal cell body membrane. Biomarker of retinal disease and retinal ischemia. Orthologous to human THY1 (Thy-1 cell surface antigen). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Thymus (RPKM 2242.5) and Brain (RPKM 1279.6) See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Thy1 in Genome Data Viewer
    Location:
    8q22
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (53286396..53291541)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (44389495..44394688)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (48382121..48387271)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108351689 Neighboring gene uncharacterized LOC134480042 Neighboring gene ubiquitin specific peptidase 2 Neighboring gene membrane frizzled-related protein

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables GPI anchor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables GTPase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables GTPase activator activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables integrin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables integrin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables integrin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in T cell receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in angiogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in angiogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell-cell adhesion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within_positive_effect cell-cell signaling IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell-cell signaling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cytoskeleton organization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in focal adhesion assembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in heterotypic cell-cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in heterotypic cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in integrin-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in integrin-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in integrin-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in integrin-mediated signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in mast cell activation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of T cell receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of T cell receptor signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of apoptotic process TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of axonogenesis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of fibroblast proliferation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    acts_upstream_of_or_within_positive_effect negative regulation of neuron projection regeneration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of neuron projection regeneration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of protein kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of GTPase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of T cell activation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of cellular extravasation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of cellular extravasation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of focal adhesion assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of focal adhesion assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of focal adhesion assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of focal adhesion assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in positive regulation of peptidyl-tyrosine phosphorylation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of release of sequestered calcium ion into cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein autophosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in receptor clustering IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of Rho-dependent protein serine/threonine kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of Rho-dependent protein serine/threonine kinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in regulation of cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of cell-matrix adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to axon injury IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in retinal cone cell development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in retinal cone cell development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in apical plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in axolemma IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell surface TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in dendrite IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in dendrite ISO
    Inferred from Sequence Orthology
    more info
     
    located_in dendrite membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in external side of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in external side of plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    located_in growth cone IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in membrane raft IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in membrane raft IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane raft ISO
    Inferred from Sequence Orthology
    more info
     
    located_in neuronal cell body membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in postsynapse ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in presynapse ISO
    Inferred from Sequence Orthology
    more info
     
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    thy-1 membrane glycoprotein
    Names
    CD90
    Thy-1 protein
    Thymus cell surface antigen
    thy-1 antigen
    thy-1 glycoprotein
    thymus cell antigen 1, theta
    NP_036805.1
    XP_017450965.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_012673.2NP_036805.1  thy-1 membrane glycoprotein preproprotein

      See identical proteins and their annotated locations for NP_036805.1

      Status: VALIDATED

      Source sequence(s)
      CB741211, CB797376, CO561977, X03150
      UniProtKB/Swiss-Prot
      P01830
      UniProtKB/TrEMBL
      A0A8I5ZPP2, A6J3U9, A6J3V0
      Related
      ENSRNOP00000079974.2, ENSRNOT00000095277.2
      Conserved Domains (2) summary
      cd00096
      Location:3340
      Ig; Ig strand B [structural motif]
      cl11960
      Location:24122
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      53286396..53291541
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017595476.2XP_017450965.1  thy-1 membrane glycoprotein isoform X1

      UniProtKB/TrEMBL
      A0A8L2Q3U4
      Related
      ENSRNOP00000008685.2, ENSRNOT00000008685.5