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    TIGD4 tigger transposable element derived 4 [ Homo sapiens (human) ]

    Gene ID: 201798, updated on 2-Nov-2024

    Summary

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    Official Symbol
    TIGD4provided by HGNC
    Official Full Name
    tigger transposable element derived 4provided by HGNC
    Primary source
    HGNC:HGNC:18335
    See related
    Ensembl:ENSG00000169989 AllianceGenome:HGNC:18335
    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
    Summary
    The protein encoded by this gene belongs to the tigger subfamily of the pogo superfamily of DNA-mediated transposons in humans. These proteins are related to DNA transposons found in fungi and nematodes, and more distantly to the Tc1 and mariner transposases. They are also very similar to the major mammalian centromere protein B. The exact function of this gene is not known. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in testis (RPKM 2.4), thyroid (RPKM 0.5) and 15 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TIGD4 in Genome Data Viewer
    Location:
    4q31.3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (152769354..152779730, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (156092424..156102800, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (153690506..153700882, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22036 Neighboring gene transmembrane protein 154 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22037 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22038 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22039 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22040 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15752 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22041 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:153600783-153601612 Neighboring gene uncharacterized LOC105377495 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22043 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22044 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:153621867-153622378 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:153628279-153628780 Neighboring gene NANOG hESC enhancer GRCh37_chr4:153649784-153650339 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:153661870-153662370 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:153669773-153670273 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22045 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22046 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22047 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:153729642-153730323 Neighboring gene ARF interacting protein 1 Neighboring gene NSA2 pseudogene 6 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:153755875-153756375 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr4:153764305-153765504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:153768357-153768857 Neighboring gene Sharpr-MPRA regulatory region 8200 Neighboring gene FH2 domain containing 1 Neighboring gene family with sequence similarity 192, member A 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 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. E3 ubiquitin ligase RNF123 targets lamin B1 and lamin-binding proteins. Khanna R, et al. FEBS J, 2018 Jun. PMID 29676528
    2. An atlas of combinatorial transcriptional regulation in mouse and man. Ravasi T, et al. Cell, 2010 Mar 5. PMID 20211142, Free PMC Article
    3. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Lamesch P, et al. Genomics, 2007 Mar. PMID 17207965, Free PMC Article
    4. The BioPlex Network: A Systematic Exploration of the Human Interactome. Huttlin EL, et al. Cell, 2015 Jul 16. PMID 26186194, Free PMC Article
    5. A reference map of the human binary protein interactome. Luck K, et al. Nature, 2020 Apr. PMID 32296183, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Clone Names

    • MGC43837

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tigger transposable element-derived protein 4

    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_145720.4 → NP_663772.1  tigger transposable element-derived protein 4

      See identical proteins and their annotated locations for NP_663772.1

      Status: REVIEWED

      Source sequence(s)
      AC106882
      Consensus CDS
      CCDS34079.1
      UniProtKB/Swiss-Prot
      Q8IY51, Q96LP5
      Related
      ENSP00000355162.2, ENST00000304337.3
      Conserved Domains (4) summary
      pfam03221
      Location:84 → 143
      HTH_Tnp_Tc5; Tc5 transposase DNA-binding domain
      pfam09026
      Location:427 → 504
      CENP-B_dimeris; Centromere protein B dimerization domain
      cl21459
      Location:16 → 67
      HTH; Helix-turn-helix domains
      cl21549
      Location:211 → 375
      rve; Integrase core domain

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      152769354..152779730 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005262807.5 → XP_005262864.1  tigger transposable element-derived protein 4 isoform X1

      See identical proteins and their annotated locations for XP_005262864.1

      UniProtKB/Swiss-Prot
      Q8IY51, Q96LP5
      Conserved Domains (4) summary
      pfam03221
      Location:84 → 143
      HTH_Tnp_Tc5; Tc5 transposase DNA-binding domain
      pfam09026
      Location:427 → 504
      CENP-B_dimeris; Centromere protein B dimerization domain
      cl21459
      Location:16 → 67
      HTH; Helix-turn-helix domains
      cl21549
      Location:211 → 375
      rve; Integrase core domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      156092424..156102800 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054349161.1 → XP_054205136.1  tigger transposable element-derived protein 4 isoform X1

      UniProtKB/Swiss-Prot
      Q8IY51, Q96LP5
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IY51.2 GenPept UniProtKB/Swiss-Prot:Q8IY51

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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