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Aliases for RTL6 Gene

Aliases for RTL6 Gene

  • Retrotransposon Gag Like 6 2 3
  • LDOC1 Like 2 3 5
  • LDOC1L 3 4 5
  • Leucine Zipper Protein Down-Regulated In Cancer Cells-Like 3 4
  • Leucine Zipper Down-Regulated In Cancer 1 Like 2 3
  • Mammalian Retrotransposon-Derived Protein 6 3 4
  • Sushi-Ichi Retrotransposon Homolog 3 2 3
  • Mammalian Retrotransposon-Derived 6 2 3
  • Mart6 3 4
  • Mar6 3 4
  • Protein LDOC1L 3
  • DJ1033E15.2 3
  • SIRH3 3

External Ids for RTL6 Gene

Previous HGNC Symbols for RTL6 Gene

  • LDOC1L

Summaries for RTL6 Gene

GeneCards Summary for RTL6 Gene

RTL6 (Retrotransposon Gag Like 6) is a Protein Coding gene. An important paralog of this gene is RTL5.

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 RTL6 Gene

Genomics for RTL6 Gene

Regulatory Elements for RTL6 Gene

Enhancers for RTL6 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
GH22G044454 1.2 FANTOM5 ENCODE dbSUPER 22.9 +42.6 42573 2.6 ESRRA CBFB ZBED1 JUNB ZIC2 ZNF217 CTBP1 GATA3 EED CREB1 RTL6 KIAA1644 GC22P044453 GC22P044472
GH22G044330 1 Ensembl 23.7 +166.7 166676 2.6 ZNF133 GLI4 ZNF2 GLIS2 KLF7 ZNF263 YY2 TSHZ1 ZNF292 GLIS1 RTL6 KIAA1644 ENSG00000273287 ENSG00000273243 LOC101927499
GH22G044523 0.9 Ensembl ENCODE 20.7 -25.9 -25903 2.4 BHLHE40 SIN3A ZNF16 EP300 NR2F2 JUND RBAK POLR2A FOS RTL6 ENSG00000220702 SULT4A1 GC22P044519 LOC105373059
GH22G044020 1.6 FANTOM5 Ensembl ENCODE dbSUPER 11.1 +476.6 476588 2.2 ZNF473 ZSCAN4 INSM2 GLI4 ZEB1 ZNF366 FOS ZNF391 YY2 TSHZ1 ENSG00000261251 LOC100506679 SAMM50 RPL35AP36 RTL6 KIAA1644 PARVB GC22M044040
GH22G044448 1.6 FANTOM5 Ensembl ENCODE dbSUPER 10.6 +49.0 49006 2.4 FOS ETV6 IKZF2 CREM SMARCC1 CBFB JUNB ELF1 ZNF592 TFDP1 RTL6 PARVG GC22P044453 LINC01656
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RTL6 on UCSC Golden Path with GeneCards custom track

Promoters for RTL6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000147061 -2 1400 TBP PKNOX1 BMI1 EGR1 ELK1 RCOR1 FOS SP3 ZNF362 JUNB

Genomic Location for RTL6 Gene

Chromosome:
22
Start:
44,492,570 bp from pter
End:
44,498,298 bp from pter
Size:
5,729 bases
Orientation:
Minus strand

Genomic View for RTL6 Gene

Genes around RTL6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTL6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTL6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTL6 Gene

Proteins for RTL6 Gene

  • Protein details for RTL6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ICC9-LDOCL_HUMAN
    Recommended name:
    Protein LDOC1L
    Protein Accession:
    Q6ICC9
    Secondary Accessions:
    • Q6ZTR1

    Protein attributes for RTL6 Gene

    Size:
    239 amino acids
    Molecular mass:
    26154 Da
    Quaternary structure:
    No Data Available

neXtProt entry for RTL6 Gene

Post-translational modifications for RTL6 Gene

No Post-translational modifications

Other Protein References for RTL6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RTL6 Gene

Domains & Families for RTL6 Gene

Gene Families for RTL6 Gene

Protein Domains for RTL6 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RTL6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6ICC9

UniProtKB/Swiss-Prot:

LDOCL_HUMAN :
  • Belongs to the LDOC1 family.
Family:
  • Belongs to the LDOC1 family.
genes like me logo Genes that share domains with RTL6: view

Function for RTL6 Gene

genes like me logo Genes that share phenotypes with RTL6: view

Animal Model Products

CRISPR 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 , Transcription Factor Targets and HOMER Transcription for RTL6 Gene

Localization for RTL6 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 RTL6 gene
Compartment Confidence
nucleus 3
cytosol 3

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RTL6 Gene

Pathways & Interactions for RTL6 Gene

No Data Available

Interacting Proteins for RTL6 Gene

Gene Ontology (GO) - Biological Process for RTL6 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RTL6 Gene

Drugs & Compounds for RTL6 Gene

No Compound Related Data Available

Transcripts for RTL6 Gene

mRNA/cDNA for RTL6 Gene

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

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RTL6 Gene

No ASD Table

Relevant External Links for RTL6 Gene

GeneLoc Exon Structure for
RTL6
ECgene alternative splicing isoforms for
RTL6

Expression for RTL6 Gene

NURSA nuclear receptor signaling pathways regulating expression of RTL6 Gene:

RTL6

Evidence on tissue expression from TISSUES for RTL6 Gene

  • 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 RTL6 Gene

Orthologs for RTL6 Gene

This gene was present in the common ancestor of mammals.

Orthologs for RTL6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LDOC1L 34 35
  • 99.02 (n)
dog
(Canis familiaris)
Mammalia LDOC1L 34 35
  • 87.59 (n)
cow
(Bos Taurus)
Mammalia LDOC1L 34 35
  • 85.08 (n)
mouse
(Mus musculus)
Mammalia Ldoc1l 34 16 35
  • 81.73 (n)
rat
(Rattus norvegicus)
Mammalia Ldoc1l 34
  • 81.03 (n)
Species where no ortholog for RTL6 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)
  • lizard (Anolis carolinensis)
  • 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 RTL6 Gene

ENSEMBL:
Gene Tree for RTL6 (if available)
TreeFam:
Gene Tree for RTL6 (if available)

Paralogs for RTL6 Gene

Paralogs for RTL6 Gene

genes like me logo Genes that share paralogs with RTL6: view

Variants for RTL6 Gene

Sequence variations from dbSNP and Humsavar for RTL6 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs1000635163 -- 44,494,481(+) CTGCT(-/CC)GTGTT utr-variant-3-prime
rs1000640909 -- 44,498,421(+) TGATG(A/C)ACAAA upstream-variant-2KB
rs1000721586 -- 44,492,693(+) ACAAT(C/T)GCTCC utr-variant-3-prime
rs1000742902 -- 44,493,106(+) ATTTA(A/G)TAATC utr-variant-3-prime
rs1001013708 -- 44,499,221(+) CCGCA(A/T)AGTAT upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RTL6 Gene

Variant ID Type Subtype PubMed ID
nsv1072217 CNV deletion 25765185
nsv1144977 CNV deletion 24896259

Variation tolerance for RTL6 Gene

Residual Variation Intolerance Score: 25.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.26; 5.77% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RTL6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RTL6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RTL6 Gene

Disorders for RTL6 Gene

Relevant External Links for RTL6

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RTL6

No disorders were found for RTL6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RTL6 Gene

Publications for RTL6 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. A genome annotation-driven approach to cloning the human ORFeome. (PMID: 15461802) Collins J.E. … Dunham I. (Genome Biol. 2004) 3 4 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A. … Hentze M.W. (Cell 2012) 3 64

Products for RTL6 Gene

Sources for RTL6 Gene

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