Atlas of Genetics and Cytogenetics in Oncology and Haematology


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RTL3 (retrotransposon Gag like 3)

Identity

Alias_namesZCCHC5
zinc finger CCHC-type containing 5
Alias_symbol (synonym)FLJ38865
Mar3
Mart3
ZHC5
SIRH9
Other alias
HGNC (Hugo) RTL3
LocusID (NCBI) 203430
Atlas_Id 79531
Location Xq21.1  [Link to chromosome band Xq21]
Location_base_pair Starts at 78656069 and ends at 78659328 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)RTL3   22997
Cards
Entrez_Gene (NCBI)RTL3  203430  retrotransposon Gag like 3
AliasesMar3; Mart3; SIRH9; ZCCHC5; 
ZHC5
GeneCards (Weizmann)RTL3
Ensembl hg19 (Hinxton)ENSG00000179300 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000179300 [Gene_View]  chrX:78656069-78659328 [Contig_View]  RTL3 [Vega]
ICGC DataPortalENSG00000179300
TCGA cBioPortalRTL3
AceView (NCBI)RTL3
Genatlas (Paris)RTL3
WikiGenes203430
SOURCE (Princeton)RTL3
Genetics Home Reference (NIH)RTL3
Genomic and cartography
GoldenPath hg38 (UCSC)RTL3  -     chrX:78656069-78659328 -  Xq21.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RTL3  -     Xq21.1   [Description]    (hg19-Feb_2009)
EnsemblRTL3 - Xq21.1 [CytoView hg19]  RTL3 - Xq21.1 [CytoView hg38]
Mapping of homologs : NCBIRTL3 [Mapview hg19]  RTL3 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AI091777 AK096184 BC136548 BC136549
RefSeq transcript (Entrez)NM_152694
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RTL3
Cluster EST : UnigeneHs.134873 [ NCBI ]
CGAP (NCI)Hs.134873
Alternative Splicing GalleryENSG00000179300
Gene ExpressionRTL3 [ NCBI-GEO ]   RTL3 [ EBI - ARRAY_EXPRESS ]   RTL3 [ SEEK ]   RTL3 [ MEM ]
Gene Expression Viewer (FireBrowse)RTL3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)203430
GTEX Portal (Tissue expression)RTL3
Human Protein AtlasENSG00000179300-RTL3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8N8U3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8N8U3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8N8U3
Splice isoforms : SwissVarQ8N8U3
PhosPhoSitePlusQ8N8U3
Domaine pattern : Prosite (Expaxy)ZF_CCHC (PS50158)   
Domains : Interpro (EBI)DUF4939    LDOC1-rel    Znf_CCHC   
Domain families : Pfam (Sanger)DUF4939 (PF16297)    zf-CCHC (PF00098)   
Domain families : Pfam (NCBI)pfam16297    pfam00098   
Domain families : Smart (EMBL)ZnF_C2HC (SM00343)  
Conserved Domain (NCBI)RTL3
DMDM Disease mutations203430
Blocks (Seattle)RTL3
SuperfamilyQ8N8U3
Human Protein Atlas [tissue]ENSG00000179300-RTL3 [tissue]
Peptide AtlasQ8N8U3
IPIIPI00175310   
Protein Interaction databases
DIP (DOE-UCLA)Q8N8U3
IntAct (EBI)Q8N8U3
FunCoupENSG00000179300
BioGRIDRTL3
STRING (EMBL)RTL3
ZODIACRTL3
Ontologies - Pathways
QuickGOQ8N8U3
Ontology : AmiGOnucleic acid binding  nucleus  zinc ion binding  
Ontology : EGO-EBInucleic acid binding  nucleus  zinc ion binding  
NDEx NetworkRTL3
Atlas of Cancer Signalling NetworkRTL3
Wikipedia pathwaysRTL3
Orthology - Evolution
OrthoDB203430
GeneTree (enSembl)ENSG00000179300
Phylogenetic Trees/Animal Genes : TreeFamRTL3
HOVERGENQ8N8U3
HOGENOMQ8N8U3
Homologs : HomoloGeneRTL3
Homology/Alignments : Family Browser (UCSC)RTL3
Gene fusions - Rearrangements
Tumor Fusion PortalRTL3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRTL3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RTL3
dbVarRTL3
ClinVarRTL3
1000_GenomesRTL3 
Exome Variant ServerRTL3
ExAC (Exome Aggregation Consortium)ENSG00000179300
GNOMAD BrowserENSG00000179300
Genetic variants : HAPMAP203430
Genomic Variants (DGV)RTL3 [DGVbeta]
DECIPHERRTL3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRTL3 
Mutations
ICGC Data PortalRTL3 
TCGA Data PortalRTL3 
Broad Tumor PortalRTL3
OASIS PortalRTL3 [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDRTL3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch RTL3
DgiDB (Drug Gene Interaction Database)RTL3
DoCM (Curated mutations)RTL3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RTL3 (select a term)
intoGenRTL3
Cancer3DRTL3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETRTL3
MedgenRTL3
Genetic Testing Registry RTL3
NextProtQ8N8U3 [Medical]
TSGene203430
GENETestsRTL3
Target ValidationRTL3
Huge Navigator RTL3 [HugePedia]
snp3D : Map Gene to Disease203430
BioCentury BCIQRTL3
ClinGenRTL3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD203430
Chemical/Pharm GKB GenePA134958360
Clinical trialRTL3
Miscellaneous
canSAR (ICR)RTL3 (select the gene name)
Probes
Litterature
PubMed5 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRTL3
EVEXRTL3
GoPubMedRTL3
iHOPRTL3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 14:00:31 CET 2017

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