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Aliases for RTL9 Gene

Aliases for RTL9 Gene

  • Retrotransposon Gag Like 9 2 3
  • Retrotransposon Gag Domain Containing 1 2 3 5
  • RGAG1 3 4 5
  • Sushi-Ichi Retrotransposon Homolog 10 2 3
  • Mammalian Retrotransposon-Derived 9 2 3
  • Tumor Antigen BJ-HCC-23 3 4
  • Retrotransposon Gag Domain-Containing Protein 1 3
  • Tumor Antigen BJHCC23 3
  • KIAA1318 4
  • SIRH10 3
  • MART9 3
  • MAR9 3

External Ids for RTL9 Gene

Previous HGNC Symbols for RTL9 Gene

  • RGAG1

Summaries for RTL9 Gene

GeneCards Summary for RTL9 Gene

RTL9 (Retrotransposon Gag Like 9) is a Protein Coding gene.

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 RTL9 Gene

Genomics for RTL9 Gene

Regulatory Elements for RTL9 Gene

Enhancers for RTL9 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
GH0XG110402 1.4 FANTOM5 Ensembl ENCODE 12.2 +44.5 44492 3.6 HDGF TBP RAD21 TCF12 GATA2 ZNF366 SCRT2 RCOR1 FOS CREM RTL9 GC0XM110384 GC0XP110441
GH0XG110020 1.3 FANTOM5 Ensembl ENCODE 11.4 -336.5 -336521 2.9 EBF1 FOSL1 PATZ1 SCRT2 RELB IKZF2 TCF7L2 SCRT1 MTA2 GFI1B RTL9 TMEM164 GC0XP110056
GH0XG110531 0.8 ENCODE 18.1 +173.4 173374 1.7 RARA TCF12 ZNF207 ETV6 FOS RELB CREM IKZF2 JUNB CEBPB RTL9 CHRDL1 TDGF1P3 LOC100131200
GH0XG110176 1.2 Ensembl ENCODE 11.8 -178.5 -178473 6.7 HDGF PKNOX1 ARNT TCF12 ZNF766 GATA2 FOS NCOA1 JUNB ZNF592 RTL9 LOC101928589 GC0XP110194
GH0XG110408 1.1 Ensembl ENCODE 11.6 +51.3 51311 2.6 ATF1 TCF12 SCRT2 FOS CREM ZEB2 ZNF592 MEF2D IKZF1 NR2C1 AMMECR1 RTL9 GC0XM110384 GC0XP110441
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RTL9 on UCSC Golden Path with GeneCards custom track

Genomic Location for RTL9 Gene

Chromosome:
X
Start:
110,358,776 bp from pter
End:
110,456,334 bp from pter
Size:
97,559 bases
Orientation:
Plus strand

Genomic View for RTL9 Gene

Genes around RTL9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTL9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTL9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTL9 Gene

Proteins for RTL9 Gene

  • Protein details for RTL9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NET4-RGAG1_HUMAN
    Recommended name:
    Retrotransposon gag domain-containing protein 1
    Protein Accession:
    Q8NET4
    Secondary Accessions:
    • Q9P2M8

    Protein attributes for RTL9 Gene

    Size:
    1388 amino acids
    Molecular mass:
    144280 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA92556.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for RTL9 Gene

Post-translational modifications for RTL9 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RTL9 Gene

No data available for DME Specific Peptides for RTL9 Gene

Domains & Families for RTL9 Gene

Gene Families for RTL9 Gene

Protein Domains for RTL9 Gene

ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RTL9: view

No data available for UniProtKB/Swiss-Prot for RTL9 Gene

Function for RTL9 Gene

Phenotypes for RTL9 Gene

genes like me logo Genes that share phenotypes with RTL9: view

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RTL9 Gene

Localization for RTL9 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 RTL9 gene
Compartment Confidence
nucleus 2
cytosol 2
mitochondrion 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RTL9 Gene

Pathways & Interactions for RTL9 Gene

No Data Available

Interacting Proteins for RTL9 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.ENSP00000419786%0d%0a9606.ENSP00000301522%0d%0a
Selected Interacting proteins: ENSP00000419786 Q8NET4-RGAG1_HUMAN for RTL9 Gene via STRING IID

Gene Ontology (GO) - Biological Process for RTL9 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RTL9 Gene

Drugs & Compounds for RTL9 Gene

No Compound Related Data Available

Transcripts for RTL9 Gene

mRNA/cDNA for RTL9 Gene

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

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RTL9 Gene

No ASD Table

Relevant External Links for RTL9 Gene

GeneLoc Exon Structure for
RTL9
ECgene alternative splicing isoforms for
RTL9

Expression for RTL9 Gene

NURSA nuclear receptor signaling pathways regulating expression of RTL9 Gene:

RTL9
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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for RTL9 Gene

Orthologs for RTL9 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RTL9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RGAG1 34 35
  • 99.23 (n)
dog
(Canis familiaris)
Mammalia RGAG1 34 35
  • 82.61 (n)
cow
(Bos Taurus)
Mammalia RGAG1 34 35
  • 81.67 (n)
mouse
(Mus musculus)
Mammalia Rgag1 34 16 35
  • 79.76 (n)
rat
(Rattus norvegicus)
Mammalia LOC100912526 34
  • 79.35 (n)
lizard
(Anolis carolinensis)
Reptilia RGAG1 35
  • 31 (a)
OneToOne
Species where no ortholog for RTL9 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)
  • 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 RTL9 Gene

ENSEMBL:
Gene Tree for RTL9 (if available)
TreeFam:
Gene Tree for RTL9 (if available)

Paralogs for RTL9 Gene

No data available for Paralogs for RTL9 Gene

Variants for RTL9 Gene

Sequence variations from dbSNP and Humsavar for RTL9 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs771130284 Uncertain significance 110,453,979(+) CACAT(C/T)GCACA reference, missense
rs1000053110 -- 110,362,214(+) TGCAG(C/G)ATATC intron-variant
rs1000103740 -- 110,361,767(+) TTATC(A/T)TCTAT intron-variant
rs1000103882 -- 110,423,688(+) GTCTT(G/T)TCAAA intron-variant
rs1000164254 -- 110,445,362(+) GTTCA(A/G)TAAAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RTL9 Gene

Variant ID Type Subtype PubMed ID
esv2758884 CNV loss 17122850

Variation tolerance for RTL9 Gene

Residual Variation Intolerance Score: 90.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.59; 56.22% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RTL9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RTL9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RTL9 Gene

Disorders for RTL9 Gene

Relevant External Links for RTL9

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RTL9

No disorders were found for RTL9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RTL9 Gene

Publications for RTL9 Gene

  1. Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10718198) Nagase T. … Ohara O. (DNA Res. 2000) 2 3 4 64
  2. 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
  3. 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
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. BioID-based Identification of Skp Cullin F-box (SCF)I^-TrCP1/2 E3 Ligase Substrates. (PMID: 25900982) Coyaud E. … Raught B. (Mol. Cell Proteomics 2015) 3 64

Products for RTL9 Gene

Sources for RTL9 Gene

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