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

Gene ID: 201798, updated on 5-Mar-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_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (152769354..152779730, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (156092424..156102800, complement)
105.20220307 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 ADP ribosylation factor 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
  • 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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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 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_2023_10

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

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