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    GIN1 gypsy retrotransposon integrase 1 [ Homo sapiens (human) ]

    Gene ID: 54826, updated on 9-Dec-2024

    Summary

    Official Symbol
    GIN1provided by HGNC
    Official Full Name
    gypsy retrotransposon integrase 1provided by HGNC
    Primary source
    HGNC:HGNC:25959
    See related
    Ensembl:ENSG00000145723 AllianceGenome:HGNC:25959
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    GIN-1; TGIN1; ZH2C2
    Summary
    Predicted to enable nucleic acid binding activity. Predicted to be involved in DNA integration. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis (RPKM 1.7), thyroid (RPKM 1.6) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See GIN1 in Genome Data Viewer
    Location:
    5q21.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (103086000..103120138, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (103594035..103628240, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (102421704..102455842, complement)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 7406 Neighboring gene uncharacterized LOC105379105 Neighboring gene eukaryotic translation initiation factor 3 subunit K pseudogene 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:102454978-102455479 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:102455480-102455980 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22858 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22859 Neighboring gene diphosphoinositol pentakisphosphate kinase 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:102477431-102477932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22860 Neighboring gene uncharacterized LOC124901037

    Genomic regions, transcripts, and products

    Expression

    • 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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ20125

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in DNA integration IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    gypsy retrotransposon integrase-like protein 1
    Names
    Ty3/Gypsy integrase 1
    zinc finger H2C2 domain-containing protein

    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_001317954.2NP_001304883.1  gypsy retrotransposon integrase-like protein 1 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 5' region and initiates translation at a downstream start codon compared to variant 1. The encoded isoform (2) has a shorter N-terminus than isoform 1.
      Source sequence(s)
      AK225572, CR627424, DB101499
      UniProtKB/Swiss-Prot
      Q9NXP7
      Conserved Domains (1) summary
      cl21549
      Location:12101
      rve; Integrase core domain
    2. NM_017676.2NP_060146.2  gypsy retrotransposon integrase-like protein 1 isoform 1

      See identical proteins and their annotated locations for NP_060146.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC008447, AK225572, DB101499
      Consensus CDS
      CCDS43349.1
      UniProtKB/Swiss-Prot
      B2RXF7, B4DIV4, Q6AI03, Q96BR2, Q9NXP7
      Related
      ENSP00000381970.2, ENST00000399004.7
      Conserved Domains (1) summary
      cl21549
      Location:154248
      rve; Integrase core domain

    RNA

    1. NR_134299.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks three internal exon compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.
      Source sequence(s)
      AK225572, BC015325, CR627424, DB101499

    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_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      103086000..103120138 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017009599.2XP_016865088.1  gypsy retrotransposon integrase-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      B2RXF7, B4DIV4, Q6AI03, Q96BR2, Q9NXP7
      Conserved Domains (1) summary
      cl21549
      Location:154248
      rve; Integrase core domain
    2. XM_047417343.1XP_047273299.1  gypsy retrotransposon integrase-like protein 1 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      103594035..103628240 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054352864.1XP_054208839.1  gypsy retrotransposon integrase-like protein 1 isoform X1

    2. XM_054352865.1XP_054208840.1  gypsy retrotransposon integrase-like protein 1 isoform X2