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Aliases for RTL4 Gene

Aliases for RTL4 Gene

  • Retrotransposon Gag Like 4 2 3
  • Zinc Finger CCHC-Type Containing 16 2 3 5
  • ZCCHC16 3 4 5
  • Mammalian Retrotransposon-Derived Protein 4 3 4
  • Sushi-Ichi Retrotransposon Homolog 11 2 3
  • Mammalian Retrotransposon-Derived 4 2 3
  • Mart4 3 4
  • Zinc Finger CCHC Domain-Containing Protein 16 3
  • Zinc Finger, CCHC Domain Containing 16 3
  • SIRH11 3
  • Mar3 4
  • Mar4 3

External Ids for RTL4 Gene

Previous HGNC Symbols for RTL4 Gene

  • ZCCHC16

Summaries for RTL4 Gene

GeneCards Summary for RTL4 Gene

RTL4 (Retrotransposon Gag Like 4) is a Protein Coding gene. An important paralog of this gene is RTL3.

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RTL4 Gene

Genomics for RTL4 Gene

Regulatory Elements for RTL4 Gene

Enhancers for RTL4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XG111944 0.4 FANTOM5 1.4 -138.5 -138478 0.3 ATF2 TRPC5 RTL4 ENSG00000271421 GC0XM112075
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RTL4 on UCSC Golden Path with GeneCards custom track

Genomic Location for RTL4 Gene

Chromosome:
X
Start:
112,083,025 bp from pter
End:
112,457,245 bp from pter
Size:
374,221 bases
Orientation:
Plus strand

Genomic View for RTL4 Gene

Genes around RTL4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTL4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTL4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTL4 Gene

Proteins for RTL4 Gene

  • Protein details for RTL4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZR62-ZCH16_HUMAN
    Recommended name:
    Zinc finger CCHC domain-containing protein 16
    Protein Accession:
    Q6ZR62
    Secondary Accessions:
    • B2RPG1

    Protein attributes for RTL4 Gene

    Size:
    310 amino acids
    Molecular mass:
    34685 Da
    Quaternary structure:
    No Data Available

neXtProt entry for RTL4 Gene

Post-translational modifications for RTL4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RTL4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RTL4 Gene

Domains & Families for RTL4 Gene

Protein Domains for RTL4 Gene

Suggested Antigen Peptide Sequences for RTL4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RTL4: view

No data available for UniProtKB/Swiss-Prot for RTL4 Gene

Function for RTL4 Gene

Gene Ontology (GO) - Molecular Function for RTL4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with RTL4: view

Phenotypes for RTL4 Gene

GenomeRNAi human phenotypes for RTL4:
genes like me logo Genes that share phenotypes with RTL4: view

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RTL4 Gene

Localization for RTL4 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RTL4 gene
Compartment Confidence
nucleus 3
cytosol 3
plasma membrane 2
extracellular 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RTL4 Gene

Pathways & Interactions for RTL4 Gene

No Data Available

Interacting Proteins for RTL4 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000340590%0d%0a9606.ENSP00000342262%0d%0a
Selected Interacting proteins: Q6ZR62-ZCH16_HUMAN ENSP00000340590 for RTL4 Gene via IID STRING

Gene Ontology (GO) - Biological Process for RTL4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0042415 norepinephrine metabolic process IEA --
GO:0050890 cognition IEA --
genes like me logo Genes that share ontologies with RTL4: view

No data available for Pathways by source and SIGNOR curated interactions for RTL4 Gene

Drugs & Compounds for RTL4 Gene

No Compound Related Data Available

Transcripts for RTL4 Gene

mRNA/cDNA for RTL4 Gene

(1) REFSEQ mRNAs :
(2) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RTL4 Gene

No ASD Table

Relevant External Links for RTL4 Gene

GeneLoc Exon Structure for
RTL4
ECgene alternative splicing isoforms for
RTL4

Expression for RTL4 Gene

NURSA nuclear receptor signaling pathways regulating expression of RTL4 Gene:

RTL4

Evidence on tissue expression from TISSUES for RTL4 Gene

  • Kidney(4.2)
  • Nervous system(4.2)
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RTL4 Gene

Orthologs for RTL4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RTL4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZCCHC16 34 35
  • 98.82 (n)
dog
(Canis familiaris)
Mammalia ZCCHC16 34 35
  • 82.17 (n)
mouse
(Mus musculus)
Mammalia Zcchc16 34 16 35
  • 74.44 (n)
rat
(Rattus norvegicus)
Mammalia Zcchc16 34
  • 73.74 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 27 (a)
ManyToMany
-- 35
  • 27 (a)
ManyToMany
-- 35
  • 26 (a)
ManyToMany
-- 35
  • 26 (a)
ManyToMany
-- 35
  • 26 (a)
ManyToMany
-- 35
  • 26 (a)
ManyToMany
-- 35
  • 26 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 25 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 23 (a)
ManyToMany
-- 35
  • 23 (a)
ManyToMany
-- 35
  • 23 (a)
ManyToMany
-- 35
  • 23 (a)
ManyToMany
-- 35
  • 22 (a)
ManyToMany
-- 35
  • 22 (a)
ManyToMany
-- 35
  • 21 (a)
ManyToMany
-- 35
  • 20 (a)
ManyToMany
-- 35
  • 20 (a)
ManyToMany
-- 35
  • 20 (a)
ManyToMany
Species where no ortholog for RTL4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for RTL4 Gene

ENSEMBL:
Gene Tree for RTL4 (if available)
TreeFam:
Gene Tree for RTL4 (if available)

Paralogs for RTL4 Gene

Paralogs for RTL4 Gene

genes like me logo Genes that share paralogs with RTL4: view

Variants for RTL4 Gene

Sequence variations from dbSNP and Humsavar for RTL4 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs1000016562 -- 112,383,595(+) AAACC(C/T)GGGTG intron-variant
rs1000018535 -- 112,228,121(+) ACAGA(C/T)TTTTT intron-variant
rs1000021966 -- 112,107,190(+) CAAGA(A/C)GAAAC intron-variant
rs1000037581 -- 112,162,514(+) GGTTT(C/G)GTTTA intron-variant
rs1000061133 -- 112,333,700(+) ATGAG(A/G)TATAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RTL4 Gene

Variant ID Type Subtype PubMed ID
dgv2363e212 CNV loss 25503493
dgv522n21 CNV gain 19592680
esv2659800 CNV deletion 23128226
esv2740381 CNV deletion 23290073
esv3305755 CNV mobile element insertion 20981092
esv3310232 CNV mobile element insertion 20981092
esv3341801 CNV insertion 20981092
esv3361732 OTHER inversion 20981092
esv3574311 CNV loss 25503493
nsv1076721 CNV duplication 25765185
nsv1078125 CNV duplication 25765185
nsv1115889 CNV duplication 24896259
nsv473256 CNV novel sequence insertion 20440878
nsv508792 CNV insertion 20534489
nsv510551 OTHER sequence alteration 20534489
nsv513620 CNV insertion 21212237
nsv516845 CNV gain 19592680
nsv517690 CNV gain+loss 19592680
nsv521225 CNV gain 19592680
nsv523375 CNV gain 19592680
nsv7041 CNV insertion 18451855

Variation tolerance for RTL4 Gene

Residual Variation Intolerance Score: 83.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.68; 32.06% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RTL4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RTL4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RTL4 Gene

Disorders for RTL4 Gene

Relevant External Links for RTL4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RTL4

No disorders were found for RTL4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RTL4 Gene

Publications for RTL4 Gene

  1. Transposable elements as a source of genetic innovation: expression and evolution of a family of retrotransposon-derived neogenes in mammals. (PMID: 15716091) Brandt J. … Volff J.-N. (Gene 2005) 2 3 64
  2. A family of neofunctionalized Ty3/gypsy retrotransposon genes in mammalian genomes. (PMID: 16093683) Brandt J. … Volff J.-N. (Cytogenet. Genome Res. 2005) 2 3 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. Probing nuclear pore complex architecture with proximity-dependent biotinylation. (PMID: 24927568) Kim D.I. … Roux K.J. (Proc. Natl. Acad. Sci. U.S.A. 2014) 3 64
  5. Genome-wide association study of biochemical traits in Korcula Island, Croatia. (PMID: 19260141) Zemunik T. … Rudan I. (Croat. Med. J. 2009) 3 64

Products for RTL4 Gene

Sources for RTL4 Gene

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