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

Gene ID: 340595, updated on 17-Sep-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 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; 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, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
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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 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

  • 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)

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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_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)