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Aliases for RTEL1-TNFRSF6B Gene

Subcategory (RNA class) for RTEL1-TNFRSF6B Gene

ncRNA

Quality Score for this RNA gene is

13

Aliases for RTEL1-TNFRSF6B Gene

  • RTEL1-TNFRSF6B Readthrough (NMD Candidate) 2 3 5

External Ids for RTEL1-TNFRSF6B Gene

Previous GeneCards Identifiers for RTEL1-TNFRSF6B Gene

  • GC20U900647
  • GC20P062291

Summaries for RTEL1-TNFRSF6B Gene

Entrez Gene Summary for RTEL1-TNFRSF6B Gene

  • This locus represents naturally occurring read-through transcription between the neighboring RTEL1 (regulator of telomere elongation helicase 1) and TNFRSF6B (tumor necrosis factor receptor superfamily, member 6b, decoy) genes on chromosome 20. The read-through transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is unlikely to produce a protein product. [provided by RefSeq, Feb 2011]

GeneCards Summary for RTEL1-TNFRSF6B Gene

RTEL1-TNFRSF6B (RTEL1-TNFRSF6B Readthrough (NMD Candidate)) is an RNA Gene, and is affiliated with the ncRNA class. Among its related pathways are Metabolism and Cytosolic iron-sulfur cluster assembly. GO annotations related to this gene include nucleic acid binding and ATP-dependent helicase activity. An important paralog of this gene is BRIP1.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RTEL1-TNFRSF6B Gene

Genomics for RTEL1-TNFRSF6B Gene

Regulatory Elements for RTEL1-TNFRSF6B Gene

Promoters for RTEL1-TNFRSF6B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around RTEL1-TNFRSF6B on UCSC Golden Path with GeneCards custom track

Genomic Location for RTEL1-TNFRSF6B Gene

Chromosome:
20
Start:
63,657,810 bp from pter
End:
63,698,698 bp from pter
Size:
40,889 bases
Orientation:
Plus strand

Genomic View for RTEL1-TNFRSF6B Gene

Genes around RTEL1-TNFRSF6B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTEL1-TNFRSF6B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTEL1-TNFRSF6B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTEL1-TNFRSF6B Gene

Proteins for RTEL1-TNFRSF6B Gene

  • Protein details for RTEL1-TNFRSF6B Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    D6RA96
    Recommended name:
    Regulator of telomere elongation helicase 1
    Protein Accession:
    D6RA96

    Protein attributes for RTEL1-TNFRSF6B Gene

    Size:
    785 amino acids
    Molecular mass:
    86787 Da
    Quaternary structure:
    • Interacts with TERF1. Interacts (via PIP-box) with PCNA; the interaction is direct and essential for suppressing telomere fragility. Interacts with MMS19; the interaction mediates the association of RTEL1 with the cytosolic iron-sulfur protein assembly (CIA) complex.
  • Protein details for RTEL1-TNFRSF6B Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    F6WH68
    Recommended name:
    Regulator of telomere elongation helicase 1
    Protein Accession:
    F6WH68

    Protein attributes for RTEL1-TNFRSF6B Gene

    Size:
    1400 amino acids
    Molecular mass:
    152526 Da
    Quaternary structure:
    • Interacts with TERF1. Interacts (via PIP-box) with PCNA; the interaction is direct and essential for suppressing telomere fragility. Interacts with MMS19; the interaction mediates the association of RTEL1 with the cytosolic iron-sulfur protein assembly (CIA) complex.

neXtProt entry for RTEL1-TNFRSF6B Gene

Proteomics data for RTEL1-TNFRSF6B Gene at MOPED

Protein Expression for RTEL1-TNFRSF6B Gene

Post-translational modifications for RTEL1-TNFRSF6B Gene

No Post-translational modifications

Other Protein References for RTEL1-TNFRSF6B Gene

ENSEMBL proteins:

No data available for DME Specific Peptides for RTEL1-TNFRSF6B Gene

Domains & Families for RTEL1-TNFRSF6B Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RTEL1-TNFRSF6B: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RTEL1-TNFRSF6B Gene

Function for RTEL1-TNFRSF6B Gene

Gene Ontology (GO) - Molecular Function for RTEL1-TNFRSF6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0004003 ATP-dependent DNA helicase activity IEA --
genes like me logo Genes that share ontologies with RTEL1-TNFRSF6B: view
genes like me logo Genes that share phenotypes with RTEL1-TNFRSF6B: view

miRNA for RTEL1-TNFRSF6B Gene

miRTarBase miRNAs that target RTEL1-TNFRSF6B

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RTEL1-TNFRSF6B Gene

Localization for RTEL1-TNFRSF6B Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RTEL1-TNFRSF6B Gene COMPARTMENTS Subcellular localization image for RTEL1-TNFRSF6B gene
Compartment Confidence
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RTEL1-TNFRSF6B Gene

Pathways & Interactions for RTEL1-TNFRSF6B Gene

genes like me logo Genes that share pathways with RTEL1-TNFRSF6B: view

Interacting Proteins for RTEL1-TNFRSF6B Gene

Gene Ontology (GO) - Biological Process for RTEL1-TNFRSF6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006260 DNA replication IEA --
genes like me logo Genes that share ontologies with RTEL1-TNFRSF6B: view

No data available for SIGNOR curated interactions for RTEL1-TNFRSF6B Gene

Drugs & Compounds for RTEL1-TNFRSF6B Gene

No Compound Related Data Available

Transcripts for RTEL1-TNFRSF6B Gene

mRNA/cDNA for RTEL1-TNFRSF6B Gene

(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for RTEL1-TNFRSF6B Gene

No ASD Table

Relevant External Links for RTEL1-TNFRSF6B Gene

GeneLoc Exon Structure for
RTEL1-TNFRSF6B
ECgene alternative splicing isoforms for
RTEL1-TNFRSF6B

Expression for RTEL1-TNFRSF6B Gene

mRNA expression in normal human tissues for RTEL1-TNFRSF6B Gene

Protein differential expression in normal tissues from HIPED for RTEL1-TNFRSF6B Gene

This gene is overexpressed in Breast (41.3) and Cervix (27.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from PaxDb for RTEL1-TNFRSF6B Gene



genes like me logo Genes that share expression patterns with RTEL1-TNFRSF6B: view

Protein tissue co-expression partners for RTEL1-TNFRSF6B Gene

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RTEL1-TNFRSF6B Gene

Orthologs for RTEL1-TNFRSF6B Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for RTEL1-TNFRSF6B Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RTEL1 36
  • 87 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 36
  • 77 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 63 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Rtel1 36
  • 74 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 62 (a)
ManyToMany
-- 36
  • 53 (a)
ManyToMany
chimpanzee
(Pan troglodytes)
Mammalia -- 36
  • 98 (a)
OneToMany
chicken
(Gallus gallus)
Aves -- 36
  • 56 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 57 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii rtel1 36
  • 52 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG4078 36
  • 35 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rtel-1 36
  • 28 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CHL1 36
  • 21 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 43 (a)
OneToMany
Species with no ortholog for RTEL1-TNFRSF6B:
  • 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • 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)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)

Evolution for RTEL1-TNFRSF6B Gene

ENSEMBL:
Gene Tree for RTEL1-TNFRSF6B (if available)
TreeFam:
Gene Tree for RTEL1-TNFRSF6B (if available)

Paralogs for RTEL1-TNFRSF6B Gene

Paralogs for RTEL1-TNFRSF6B Gene

(2) SIMAP similar genes for RTEL1-TNFRSF6B Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with RTEL1-TNFRSF6B: view

Variants for RTEL1-TNFRSF6B Gene

Structural Variations from Database of Genomic Variants (DGV) for RTEL1-TNFRSF6B Gene

Variant ID Type Subtype PubMed ID
dgv4618n71 CNV Loss 21882294
nsv913190 CNV Loss 21882294
dgv1344e1 CNV Complex 17122850
nsv913213 CNV Loss 21882294
nsv470563 CNV Loss 18288195
dgv4641n71 CNV Loss 21882294
dgv4644n71 CNV Loss 21882294
dgv1345e1 CNV Complex 17122850
nsv428381 CNV Gain+Loss 18775914
nsv913241 CNV Loss 21882294
nsv9828 CNV Gain+Loss 18304495
esv2722952 CNV Deletion 23290073
esv29168 CNV Loss 19812545
nsv820558 CNV Deletion 20802225
esv988534 CNV Gain 20482838
esv2722953 CNV Deletion 23290073
esv2722954 CNV Deletion 23290073
esv2722955 CNV Deletion 23290073
esv2722956 CNV Deletion 23290073
nsv189 CNV Insertion 15895083
nsv3449 CNV Insertion 18451855
nsv179257 CNV Loss 16902084
esv2006909 CNV Deletion 18987734
esv5108 CNV Deletion 18987735
esv2722957 CNV Deletion 23290073
dgv4645n71 CNV Loss 21882294
dgv4646n71 CNV Loss 21882294
dgv4647n71 CNV Loss 21882294
nsv913249 CNV Loss 21882294
nsv913250 CNV Loss 21882294
esv2722958 CNV Deletion 23290073
esv992110 CNV Insertion 20482838
nsv913253 CNV Loss 21882294

Relevant External Links for RTEL1-TNFRSF6B Gene

HapMap Linkage Disequilibrium report
RTEL1-TNFRSF6B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations from dbSNP and Humsavar and Variation tolerance for RTEL1-TNFRSF6B Gene

Disorders for RTEL1-TNFRSF6B Gene

Relevant External Links for RTEL1-TNFRSF6B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RTEL1-TNFRSF6B

No disorders were found for RTEL1-TNFRSF6B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RTEL1-TNFRSF6B Gene

Publications for RTEL1-TNFRSF6B Gene

  1. Variants near TERT and TERC influencing telomere length are associated with high-grade glioma risk. (PMID: 24908248) Walsh K.M. … Wrensch M.R. (Nat. Genet. 2014) 3 67
  2. Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array. (PMID: 23535732) Eeles R.A. … Easton D.F. (Nat. Genet. 2013) 3
  3. Genome-wide association study of glioma and meta-analysis. (PMID: 22886559) Rajaraman P. … Chanock S.J. (Hum. Genet. 2012) 3
  4. Genome-wide association scan of dental caries in the permanent dentition. (PMID: 23259602) Wang X. … Marazita M.L. (BMC Oral Health 2012) 3
  5. Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47. (PMID: 21297633) Anderson C.A. … Rioux J.D. (Nat. Genet. 2011) 3

Products for RTEL1-TNFRSF6B Gene

Sources for RTEL1-TNFRSF6B Gene

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