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Aliases for RTL5 Gene

Aliases for RTL5 Gene

  • Retrotransposon Gag Like 5 2 3
  • Retrotransposon Gag Domain Containing 4 2 3 5
  • RGAG4 3 4 5
  • Sushi-Ichi Retrotransposon Homolog 8 2 3
  • Mammalian Retrotransposon-Derived 5 2 3
  • Retrotransposon Gag Domain-Containing Protein 4 3
  • 6430402L03Rik 3
  • KIAA2001 4
  • MART5 3
  • SIRH8 3
  • MAR5 3

External Ids for RTL5 Gene

Previous HGNC Symbols for RTL5 Gene

  • RGAG4

Summaries for RTL5 Gene

GeneCards Summary for RTL5 Gene

RTL5 (Retrotransposon Gag Like 5) is a Protein Coding gene. An important paralog of this gene is RTL6.

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 RTL5 Gene

Genomics for RTL5 Gene

Regulatory Elements for RTL5 Gene

Enhancers for RTL5 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
GH0XG072107 1.7 FANTOM5 Ensembl ENCODE dbSUPER 31.6 +23.9 23907 1.2 KLF17 RAD21 GLIS2 EGR2 ZNF263 CEBPB ZEB2 ZNF398 ZNF781 ZFP69B RTL5 FLJ44635 NHSL2 OGT PIR32507 PIR46676
GH0XG071181 2 FANTOM5 Ensembl ENCODE dbSUPER 19.4 +949.0 949030 3.5 PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 YY1 ZNF766 LOC100420758 OGT RTL5 P2RY4 RPS23P8 ENSG00000229601 SNX12 RAB41 IL2RG CXCR3
GH0XG072272 1.1 ENCODE 28.2 -143.0 -143005 6.0 HDGF ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 RTL5 OGT LOC100420758 ERCC6L NAP1L2 PIN4 RPS4X TOMM20P4 LOC392489 NHSL2
GH0XG072001 0.8 ENCODE 32.4 +130.3 130276 0.2 ZFP64 ZNF140 ZNF101 ZNF697 ZNF766 GLI2 ZNF354C ZNF433 ZNF202 ZNF680 RTL5 NHSL2 GC0XM071966 RNU6-1078P RPS26P11
GH0XG072099 1.7 FANTOM5 Ensembl ENCODE dbSUPER 12.2 +28.8 28836 6.9 CTCF PKNOX1 CBX3 EBF1 ZIC2 RELA YY1 ZNF121 EED RELB PIN4 RTL5 NHSL2 FLJ44635 CXCR3 OGT PIR32507 PIR46676
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RTL5 on UCSC Golden Path with GeneCards custom track

Promoters for RTL5 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000247194 201 1401 BMI1 RAD21 GLIS2 ZNF366 SCRT2 EGR2 SP3 ZNF398 REST ZNF610

Genomic Location for RTL5 Gene

Chromosome:
X
Start:
72,127,110 bp from pter
End:
72,131,901 bp from pter
Size:
4,792 bases
Orientation:
Minus strand

Genomic View for RTL5 Gene

Genes around RTL5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTL5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTL5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTL5 Gene

Proteins for RTL5 Gene

  • Protein details for RTL5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5HYW3-RGAG4_HUMAN
    Recommended name:
    Retrotransposon gag domain-containing protein 4
    Protein Accession:
    Q5HYW3
    Secondary Accessions:
    • A7E2W7
    • Q8NCM4
    • Q9NPX1

    Protein attributes for RTL5 Gene

    Size:
    569 amino acids
    Molecular mass:
    64711 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC02710.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for RTL5 Gene

Post-translational modifications for RTL5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RTL5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RTL5 Gene

Domains & Families for RTL5 Gene

Gene Families for RTL5 Gene

Protein Domains for RTL5 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RTL5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RTL5: view

No data available for UniProtKB/Swiss-Prot for RTL5 Gene

Function for RTL5 Gene

Phenotypes for RTL5 Gene

genes like me logo Genes that share phenotypes with RTL5: 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 RTL5 Gene

Localization for RTL5 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 RTL5 gene
Compartment Confidence
nucleus 3
cytosol 3
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
golgi apparatus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RTL5 Gene

Pathways & Interactions for RTL5 Gene

No Data Available

Interacting Proteins for RTL5 Gene

Gene Ontology (GO) - Biological Process for RTL5 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RTL5 Gene

Drugs & Compounds for RTL5 Gene

No Compound Related Data Available

Transcripts for RTL5 Gene

mRNA/cDNA for RTL5 Gene

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RTL5 Gene

No ASD Table

Relevant External Links for RTL5 Gene

GeneLoc Exon Structure for
RTL5
ECgene alternative splicing isoforms for
RTL5

Expression for RTL5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of RTL5 Gene:

RTL5
genes like me logo Genes that share expression patterns with RTL5: view

Primer Products

No data available for mRNA expression in normal human tissues , 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 RTL5 Gene

Orthologs for RTL5 Gene

This gene was present in the common ancestor of mammals.

Orthologs for RTL5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RGAG4 34 35
  • 97.93 (n)
mouse
(Mus musculus)
Mammalia Rgag4 34 16 35
  • 82.57 (n)
cow
(Bos Taurus)
Mammalia RGAG4 34 35
  • 82.23 (n)
dog
(Canis familiaris)
Mammalia RGAG4 34 35
  • 82.21 (n)
rat
(Rattus norvegicus)
Mammalia LOC100911832 34
  • 81.3 (n)
Species where no ortholog for RTL5 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 RTL5 Gene

ENSEMBL:
Gene Tree for RTL5 (if available)
TreeFam:
Gene Tree for RTL5 (if available)

Paralogs for RTL5 Gene

Paralogs for RTL5 Gene

genes like me logo Genes that share paralogs with RTL5: view

Variants for RTL5 Gene

Sequence variations from dbSNP and Humsavar for RTL5 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs1000974492 -- 72,129,395(+) GCTCA(C/T)TGGGG intron-variant, utr-variant-3-prime
rs1000991693 -- 72,132,425(+) CTGTT(C/T)CCCCC intron-variant, upstream-variant-2KB
rs1001868107 -- 72,132,458(+) CTCAG(C/T)AGCCC intron-variant, upstream-variant-2KB
rs1002432998 -- 72,132,993(+) ACCAG(C/G)GCAGT intron-variant, upstream-variant-2KB
rs1004099478 -- 72,132,930(+) AATGG(C/T)GAATA intron-variant, upstream-variant-2KB

Variation tolerance for RTL5 Gene

Residual Variation Intolerance Score: 90.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.64; 65.63% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RTL5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RTL5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for RTL5 Gene

Disorders for RTL5 Gene

Relevant External Links for RTL5

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RTL5

No disorders were found for RTL5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RTL5 Gene

Publications for RTL5 Gene

  1. Characterization of size-fractionated cDNA libraries generated by the in vitro recombination-assisted method. (PMID: 12056414) Ohara O. … Koseki H. (DNA Res. 2002) 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 DNA sequence of the human X chromosome. (PMID: 15772651) Ross M.T. … Bentley D.R. (Nature 2005) 3 4 64
  5. Genome-scale RNAi screen for host factors required for HIV replication. (PMID: 18976975) Zhou H. … Espeseth A.S. (Cell Host Microbe 2008) 3 64

Products for RTL5 Gene

Sources for RTL5 Gene

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