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RTL3 retrotransposon Gag like 3 [ Homo sapiens (human) ]

Gene ID: 203430, updated on 2-Nov-2024

Summary

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Official Symbol
RTL3provided by HGNC
Official Full Name
retrotransposon Gag like 3provided by HGNC
Primary source
HGNC:HGNC:22997
See related
Ensembl:ENSG00000179300 MIM:301130; AllianceGenome:HGNC:22997
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
Also known as
Mar3; ZHC5; Mart3; SIRH9; ZCCHC5
Summary
This gene is a member of a family of gag-related retrotransposon genes. These genes appear to have lost the ability to retrotranspose; however, their open reading frames have remained intact, which may indicate that these genes have acquired new functions in the cell. [provided by RefSeq, Nov 2009]
Expression
Low expression observed in reference dataset See more
Orthologs
mouse all
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Genomic context

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See RTL3 in Genome Data Viewer
Location:
Xq21.1
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (78656068..78659328, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (77092886..77096144, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (77911565..77914825, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene high mobility group nucleosome binding domain 1 pseudogene 34 Neighboring gene UBE2V1 pseudogene 7 Neighboring gene uncharacterized LOC107985670 Neighboring gene phosphoribosyl pyrophosphate amidotransferase pseudogene 2 Neighboring gene lysophosphatidic acid receptor 4

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. Transposable elements as a source of genetic innovation: expression and evolution of a family of retrotransposon-derived neogenes in mammals. Brandt J, et al. Gene, 2005 Jan 17. PMID 15716091
  2. A family of neofunctionalized Ty3/gypsy retrotransposon genes in mammalian genomes. Brandt J, et al. Cytogenet Genome Res, 2005. PMID 16093683
  3. The DNA sequence of the human X chromosome. Ross MT, et al. Nature, 2005 Mar 17. PMID 15772651, Free PMC Article
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

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

General gene information

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Markers

Homology

Clone Names

  • FLJ38865

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
retrotransposon Gag-like protein 3
Names
Sushi-Ichi retrotransposon homolog 9
mammalian retrotransposon-derived 3
zinc finger CCHC domain-containing protein 5
zinc finger CCHC-type containing 5
zinc finger, CCHC domain containing 5

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.

Genomic

  1. NG_015973.1 RefSeqGene

    Range
    5001..8261
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_152694.3 → NP_689907.1  retrotransposon Gag-like protein 3

    See identical proteins and their annotated locations for NP_689907.1

    Status: REVIEWED

    Source sequence(s)
    AI091777, AK096184, AL662885
    Consensus CDS
    CCDS14440.1
    UniProtKB/Swiss-Prot
    B2RMZ0, Q5JQE9, Q8N8U3
    Related
    ENSP00000316794.1, ENST00000321110.2
    Conserved Domains (3) summary
    PHA03160
    Location:31 → 161
    PHA03160; hypothetical protein; Provisional
    pfam00098
    Location:443 → 459
    zf-CCHC; Zinc knuckle
    pfam16297
    Location:237 → 316
    DUF4939; Domain of unknown function (DUF4939)

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
    78656068..78659328 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    77092886..77096144 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8N8U3.1 GenPept UniProtKB/Swiss-Prot:Q8N8U3

Gene LinkOut

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

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