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    RTL4 retrotransposon Gag like 4 [ Homo sapiens (human) ]

    Gene ID: 340595, updated on 27-Nov-2024

    Summary

    Official Symbol
    RTL4provided by HGNC
    Official Full Name
    retrotransposon Gag like 4provided by HGNC
    Primary source
    HGNC:HGNC:25214
    See related
    Ensembl:ENSG00000187823 MIM:301131; AllianceGenome:HGNC:25214
    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
    Mar4; Mart4; SIRH1; SIRH11; ZCCHC16
    Summary
    Predicted to enable nucleic acid binding activity and zinc ion binding activity. Predicted to act upstream of or within cognition and norepinephrine metabolic process. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RTL4 in Genome Data Viewer
    Location:
    Xq23
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (112083013..112457514)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (110531358..110907626)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (111326241..111700742)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29860 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:110924066-110924785 Neighboring gene ALG13 UDP-N-acetylglucosaminyltransferase subunit Neighboring gene transient receptor potential cation channel subfamily C member 5 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20944 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:111155775-111156274 Neighboring gene TRPC5 opposite strand Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29861 Neighboring gene divergent-paired related homeobox pseudogene 7 Neighboring gene CCDC121 pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:111744986-111745583 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:111745584-111746180 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chrX:111778361-111778872 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chrX:111778873-111779384 and GRCh37_chrX:111779385-111779896 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:111779897-111780408 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chrX:111857764-111858429 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29862 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29863 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chrX:111911869-111912514 Neighboring gene LHFPL tetraspan subfamily member 1 Neighboring gene high mobility group box 3 pseudogene 30

    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

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association study of biochemical traits in Korcula Island, Croatia.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ46608

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in cognition IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in norepinephrine metabolic process IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    retrotransposon Gag-like protein 4
    Names
    Sushi-Ichi retrotransposon homolog 11
    mammalian retrotransposon-derived 4
    mammalian retrotransposon-derived protein 4
    zinc finger CCHC domain-containing protein 16
    zinc finger CCHC-type containing 16
    zinc finger, CCHC domain containing 16

    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_001004308.3NP_001004308.2  retrotransposon Gag-like protein 4

      See identical proteins and their annotated locations for NP_001004308.2

      Status: VALIDATED

      Source sequence(s)
      AL031388, AL929583, BX088563
      Consensus CDS
      CCDS35369.1
      UniProtKB/Swiss-Prot
      B2RPG1, Q6ZR62
      Related
      ENSP00000512188.1, ENST00000695808.1
    2. NM_001395362.2NP_001382291.1  retrotransposon Gag-like protein 4

      Status: VALIDATED

      Source sequence(s)
      AL031176, AL031388, AL929583, BX088563
      Consensus CDS
      CCDS35369.1
      UniProtKB/Swiss-Prot
      B2RPG1, Q6ZR62
      Related
      ENSP00000512211.1, ENST00000695839.1

    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_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      112083013..112457514
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      110531358..110907626
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)