Atlas of Genetics and Cytogenetics in Oncology and Haematology

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RTL4 (retrotransposon Gag like 4)

Identity

Alias (NCBI)Mar4
Mart4
SIRH11
ZCCHC16
HGNC (Hugo) RTL4
HGNC Alias symbMart4
Mar4
FLJ46608
SIRH11
HGNC Alias nameSushi-Ichi retrotransposon homolog 11
 mammalian retrotransposon-derived 4
HGNC Previous nameZCCHC16
HGNC Previous namezinc finger CCHC-type containing 16
LocusID (NCBI) 340595
Atlas_Id 79165
Location Xq23  [Link to chromosome band Xq23]
Location_base_pair Starts at 112083025 and ends at 112457245 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)RTL4   25214
Cards
Entrez_Gene (NCBI)RTL4    retrotransposon Gag like 4
AliasesMar4; Mart4; SIRH11; ZCCHC16
GeneCards (Weizmann)RTL4
Ensembl hg19 (Hinxton)ENSG00000187823 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000187823 [Gene_View]  ENSG00000187823 [Sequence]  chrX:112083025-112457245 [Contig_View]  RTL4 [Vega]
ICGC DataPortalENSG00000187823
TCGA cBioPortalRTL4
AceView (NCBI)RTL4
Genatlas (Paris)RTL4
SOURCE (Princeton)RTL4
Genetics Home Reference (NIH)RTL4
Genomic and cartography
GoldenPath hg38 (UCSC)RTL4  -     chrX:112083025-112457245 +  Xq23   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RTL4  -     Xq23   [Description]    (hg19-Feb_2009)
GoldenPathRTL4 - Xq23 [CytoView hg19]  RTL4 - Xq23 [CytoView hg38]
ImmunoBaseENSG00000187823
genome Data Viewer NCBIRTL4 [Mapview hg19]  
Gene and transcription
Genbank (Entrez)AK128465 BC137430 BC137433
RefSeq transcript (Entrez)NM_001004308
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RTL4
Alternative Splicing GalleryENSG00000187823
Gene ExpressionRTL4 [ NCBI-GEO ]   RTL4 [ EBI - ARRAY_EXPRESS ]   RTL4 [ SEEK ]   RTL4 [ MEM ]
Gene Expression Viewer (FireBrowse)RTL4 [ Firebrowse - Broad ]
GenevisibleExpression of RTL4 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)340595
GTEX Portal (Tissue expression)RTL4
Human Protein AtlasENSG00000187823-RTL4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ6ZR62   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ6ZR62  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ6ZR62
Splice isoforms : SwissVarQ6ZR62
PhosPhoSitePlusQ6ZR62
Domaine pattern : Prosite (Expaxy)ZF_CCHC (PS50158)   
Domains : Interpro (EBI)LDOC1-rel    Znf_CCHC    Znf_CCHC_sf   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)RTL4
Blocks (Seattle)RTL4
SuperfamilyQ6ZR62
Human Protein Atlas [tissue]ENSG00000187823-RTL4 [tissue]
Peptide AtlasQ6ZR62
IPIIPI00418727   
Protein Interaction databases
DIP (DOE-UCLA)Q6ZR62
IntAct (EBI)Q6ZR62
BioGRIDRTL4
STRING (EMBL)RTL4
ZODIACRTL4
Ontologies - Pathways
QuickGOQ6ZR62
Ontology : AmiGOnucleic acid binding  zinc ion binding  norepinephrine metabolic process  cognition  
Ontology : EGO-EBInucleic acid binding  zinc ion binding  norepinephrine metabolic process  cognition  
NDEx NetworkRTL4
Atlas of Cancer Signalling NetworkRTL4
Wikipedia pathwaysRTL4
Orthology - Evolution
OrthoDB340595
GeneTree (enSembl)ENSG00000187823
Phylogenetic Trees/Animal Genes : TreeFamRTL4
HOGENOMQ6ZR62
Homologs : HomoloGeneRTL4
Homology/Alignments : Family Browser (UCSC)RTL4
Gene fusions - Rearrangements
Fusion : QuiverRTL4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRTL4 [hg38]
dbVarRTL4
ClinVarRTL4
MonarchRTL4
1000_GenomesRTL4 
Exome Variant ServerRTL4
GNOMAD BrowserENSG00000187823
Varsome BrowserRTL4
Genomic Variants (DGV)RTL4 [DGVbeta]
DECIPHERRTL4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRTL4 
Mutations
ICGC Data PortalRTL4 
TCGA Data PortalRTL4 
Broad Tumor PortalRTL4
OASIS PortalRTL4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRTL4  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DRTL4
Mutations and Diseases : HGMDRTL4
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 RTL4
DgiDB (Drug Gene Interaction Database)RTL4
DoCM (Curated mutations)RTL4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RTL4 (select a term)
intoGenRTL4
Cancer3DRTL4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETRTL4
MedgenRTL4
Genetic Testing Registry RTL4
NextProtQ6ZR62 [Medical]
GENETestsRTL4
Target ValidationRTL4
Huge Navigator RTL4 [HugePedia]
ClinGenRTL4
Clinical trials, drugs, therapy
MyCancerGenomeRTL4
Protein Interactions : CTD
Pharm GKB GenePA142670538
Clinical trialRTL4
Miscellaneous
canSAR (ICR)RTL4 (select the gene name)
HarmonizomeRTL4
DataMed IndexRTL4
Probes
Litterature
PubMed8 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRTL4
EVEXRTL4
GoPubMedRTL4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Dec 5 17:25:50 CET 2020
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