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    THYN1 thymocyte nuclear protein 1 [ Homo sapiens (human) ]

    Gene ID: 29087, updated on 27-Nov-2024

    Summary

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    Official Symbol
    THYN1provided by HGNC
    Official Full Name
    thymocyte nuclear protein 1provided by HGNC
    Primary source
    HGNC:HGNC:29560
    See related
    Ensembl:ENSG00000151500 MIM:613739; AllianceGenome:HGNC:29560
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    MY105; THY28; MDS012; HSPC144; THY28KD
    Summary
    This gene encodes a protein that is highly conserved among vertebrates and plant species and may be involved in the induction of apoptosis. Alternatively spliced transcript variants encoding different isoforms have been described. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in thyroid (RPKM 21.0), ovary (RPKM 20.9) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See THYN1 in Genome Data Viewer
    Location:
    11q25
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (134248282..134253352, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (134290127..134295197, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (134118176..134123246, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene non-SMC condensin II complex subunit D3 Neighboring gene zinc finger protein 628 pseudogene Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:134045931-134047130 Neighboring gene MPRA-validated peak1520 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4093 Neighboring gene MPRA-validated peak1521 silencer Neighboring gene MPRA-validated peak1522 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5768 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4094 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5769 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5770 Neighboring gene VPS26 retromer complex component B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5771 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4095 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4096 Neighboring gene acyl-CoA dehydrogenase family member 8 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:134142736-134143291 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5772 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5773 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5774 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4097 Neighboring gene galactosidase beta 1 like 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:134180995-134181180 Neighboring gene ATPase H+/K+ transporting subunit beta pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Identification, expression, and purification of a unique stable domain from human HSPC144 protein. Song AX, et al. Protein Expr Purif, 2005 Jul. PMID 15939300
    2. Modulation of mThy28 nuclear protein expression during thymocyte development. Jiang X, et al. Tissue Cell, 2003 Dec. PMID 14580360
    3. Anti-IgM-induced down-regulation of nuclear Thy28 protein expression in Ramos B lymphoma cells. Jiang XZ, et al. Apoptosis, 2003 Oct. PMID 14601557
    4. Molecular cloning and characterization of the mouse thymocyte protein gene. Miyaji H, et al. Gene, 2002 Sep 4. PMID 12384300
    5. Expressed sequence tag analysis of human retina for the NEIBank Project: retbindin, an abundant, novel retinal cDNA and alternative splicing of other retina-preferred gene transcripts. Wistow G, et al. Mol Vis, 2002 Jun 15. PMID 12107411

    See all (34) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The 2.3A-resolution structure revealed only one 2-fold axis of rotational pseudosymmetry. A potential RNA-binding domain from human YTH-domain-containing protein 2 has the most similar 3-D fold to that of the DUF55 domain; it may be an RNA-related domain.
      Title: Determining the DUF55-domain structure of human thymocyte nuclear protein 1 from crystals partially twinned by tetartohedry.
    2. HSPC144 was expressed and purified, and a stable fragment (residues 44-225) was identified by limited proteolysis method.
      Title: Identification, expression, and purification of a unique stable domain from human HSPC144 protein.
    3. Studies of the mouse counterpart.
      Title: Molecular cloning and characterization of the mouse thymocyte protein gene.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See Variation Viewer (GRCh37.p13)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC12187

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus HDA PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    thymocyte nuclear protein 1
    Names
    thymocyte protein thy28

    NCBI Reference Sequences (RefSeq)

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    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_001037304.2 → NP_001032381.1  thymocyte nuclear protein 1 isoform 2

      See identical proteins and their annotated locations for NP_001032381.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and lacks an exon in the 3' coding region, compared to variant 1. The resulting isoform (2) has a distinct and shorter C-terminus, compared to isoform 1. Isoform 2 is also encoded by variant 2.
      Source sequence(s)
      BC006978, BU685681, BU934600
      Consensus CDS
      CCDS8497.1
      UniProtKB/Swiss-Prot
      Q9P016
      Conserved Domains (1) summary
      cl00728
      Location:57 → 160
      EVE; EVE domain

    2. NM_001037305.2 → NP_001032382.1  thymocyte nuclear protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001032382.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants 1, 3, and 5 encode the same isoform (1).
      Source sequence(s)
      BC093074, BQ640137, BU685681
      Consensus CDS
      CCDS8496.1
      UniProtKB/Swiss-Prot
      Q567Q2, Q9H3L4, Q9HC20, Q9P016
      Related
      ENSP00000376373.3, ENST00000392594.7
      Conserved Domains (1) summary
      cd21133
      Location:55 → 219
      EVE; EVE domains are putative RNA-binding domains that belong to the PUA superfamily

    3. NM_014174.3 → NP_054893.1  thymocyte nuclear protein 1 isoform 1

      See identical proteins and their annotated locations for NP_054893.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Isoform 1 is also encoded by variants 3 and 5.
      Source sequence(s)
      AF161493, BQ959408
      Consensus CDS
      CCDS8496.1
      UniProtKB/Swiss-Prot
      Q567Q2, Q9H3L4, Q9HC20, Q9P016
      Related
      ENSP00000341657.3, ENST00000341541.8
      Conserved Domains (1) summary
      cd21133
      Location:55 → 219
      EVE; EVE domains are putative RNA-binding domains that belong to the PUA superfamily

    4. NM_199297.2 → NP_954994.1  thymocyte nuclear protein 1 isoform 2

      See identical proteins and their annotated locations for NP_954994.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and lacks an exon in the 3' coding region, compared to variant 1. The resulting isoform (2) has a distinct and shorter C-terminus, compared to isoform 1. Isoform 2 is also encoded by variant 4.
      Source sequence(s)
      AF182413, BC006978, BU658940
      Consensus CDS
      CCDS8497.1
      UniProtKB/Swiss-Prot
      Q9P016
      Related
      ENSP00000341452.5, ENST00000352327.5
      Conserved Domains (1) summary
      cl00728
      Location:57 → 160
      EVE; EVE domain

    5. NM_199298.2 → NP_954995.1  thymocyte nuclear protein 1 isoform 1

      See identical proteins and their annotated locations for NP_954995.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 3, and 5 encode the same isoform (1).
      Source sequence(s)
      AF161493, BU658940
      Consensus CDS
      CCDS8496.1
      UniProtKB/Swiss-Prot
      Q567Q2, Q9H3L4, Q9HC20, Q9P016
      Related
      ENSP00000376374.2, ENST00000392595.6
      Conserved Domains (1) summary
      cd21133
      Location:55 → 219
      EVE; EVE domains are putative RNA-binding domains that belong to the PUA superfamily

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      134248282..134253352 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      134290127..134295197 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9P016.1 GenPept UniProtKB/Swiss-Prot:Q9P016

    Gene LinkOut

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