Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   
X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

USP6NL (USP6 N-terminal like)

Identity

Alias_namesUSP6NL-IT1
USP6NL intronic transcript 1 (non-protein coding)
Alias_symbol (synonym)RNTRE
KIAA0019
TRE2NL
RN-tre
Other alias
HGNC (Hugo) USP6NL
LocusID (NCBI) 9712
Atlas_Id 55954
Location 10p14  [Link to chromosome band 10p14]
Location_base_pair Starts at 11460510 and ends at 11611789 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)
USP6NL (10p14) / ARMC3 (10p12.2)USP6NL (10p14) / CCDC3 (10p13)USP6NL (10p14) / FAM107B (10p13)
USP6NL (10p14) / GPHN (14q23.3)USP6NL (10p14) / GRB2 (17q25.1)USP6NL (10p14) / MCOLN1 (19p13.2)
USP6NL (10p14) / SPIN1 (9q22.1)USP6NL (10p14) / UPF2 (10p14)

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(10;10)(p12;p14) USP6NL/ARMC3

External links

Nomenclature
HGNC (Hugo)USP6NL   16858
Cards
Entrez_Gene (NCBI)USP6NL  9712  USP6 N-terminal like
AliasesRNTRE; TRE2NL; USP6NL-IT1
GeneCards (Weizmann)USP6NL
Ensembl hg19 (Hinxton)ENSG00000148429 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000148429 [Gene_View]  ENSG00000148429 [Sequence]  chr10:11460510-11611789 [Contig_View]  USP6NL [Vega]
ICGC DataPortalENSG00000148429
TCGA cBioPortalUSP6NL
AceView (NCBI)USP6NL
Genatlas (Paris)USP6NL
WikiGenes9712
SOURCE (Princeton)USP6NL
Genetics Home Reference (NIH)USP6NL
Genomic and cartography
GoldenPath hg38 (UCSC)USP6NL  -     chr10:11460510-11611789 -  10p14   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)USP6NL  -     10p14   [Description]    (hg19-Feb_2009)
EnsemblUSP6NL - 10p14 [CytoView hg19]  USP6NL - 10p14 [CytoView hg38]
Mapping of homologs : NCBIUSP6NL [Mapview hg19]  USP6NL [Mapview hg38]
OMIM605405   
Gene and transcription
Genbank (Entrez)AA741061 AB449916 AK091487 AK292944 AK311094
RefSeq transcript (Entrez)NM_001080491 NM_014688
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)USP6NL
Cluster EST : UnigeneHs.688100 [ NCBI ]
CGAP (NCI)Hs.688100
Alternative Splicing GalleryENSG00000148429
Gene ExpressionUSP6NL [ NCBI-GEO ]   USP6NL [ EBI - ARRAY_EXPRESS ]   USP6NL [ SEEK ]   USP6NL [ MEM ]
Gene Expression Viewer (FireBrowse)USP6NL [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9712
GTEX Portal (Tissue expression)USP6NL
Human Protein AtlasENSG00000148429-USP6NL [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ92738   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ92738  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ92738
Splice isoforms : SwissVarQ92738
PhosPhoSitePlusQ92738
Domaine pattern : Prosite (Expaxy)TBC_RABGAP (PS50086)   
Domains : Interpro (EBI)Rab-GTPase-TBC_dom    Rab-GTPase_TBC_sf   
Domain families : Pfam (Sanger)RabGAP-TBC (PF00566)   
Domain families : Pfam (NCBI)pfam00566   
Domain families : Smart (EMBL)TBC (SM00164)  
Conserved Domain (NCBI)USP6NL
DMDM Disease mutations9712
Blocks (Seattle)USP6NL
SuperfamilyQ92738
Human Protein Atlas [tissue]ENSG00000148429-USP6NL [tissue]
Peptide AtlasQ92738
IPIIPI00921527   IPI00400875   IPI00816349   
Protein Interaction databases
DIP (DOE-UCLA)Q92738
IntAct (EBI)Q92738
FunCoupENSG00000148429
BioGRIDUSP6NL
STRING (EMBL)USP6NL
ZODIACUSP6NL
Ontologies - Pathways
QuickGOQ92738
Ontology : AmiGOGTPase activator activity  GTPase activator activity  cytosol  plasma membrane  intracellular protein transport  Golgi organization  Rab GTPase binding  Rab GTPase binding  virion assembly  cytoplasmic vesicle  cytoplasmic vesicle  trans-Golgi network membrane  retrograde transport, plasma membrane to Golgi  positive regulation of GTPase activity  plasma membrane to endosome transport  activation of GTPase activity  regulation of cilium assembly  regulation of Golgi organization  
Ontology : EGO-EBIGTPase activator activity  GTPase activator activity  cytosol  plasma membrane  intracellular protein transport  Golgi organization  Rab GTPase binding  Rab GTPase binding  virion assembly  cytoplasmic vesicle  cytoplasmic vesicle  trans-Golgi network membrane  retrograde transport, plasma membrane to Golgi  positive regulation of GTPase activity  plasma membrane to endosome transport  activation of GTPase activity  regulation of cilium assembly  regulation of Golgi organization  
NDEx NetworkUSP6NL
Atlas of Cancer Signalling NetworkUSP6NL
Wikipedia pathwaysUSP6NL
Orthology - Evolution
OrthoDB9712
GeneTree (enSembl)ENSG00000148429
Phylogenetic Trees/Animal Genes : TreeFamUSP6NL
HOGENOMQ92738
Homologs : HomoloGeneUSP6NL
Homology/Alignments : Family Browser (UCSC)USP6NL
Gene fusions - Rearrangements
Fusion : QuiverUSP6NL
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerUSP6NL [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)USP6NL
dbVarUSP6NL
ClinVarUSP6NL
1000_GenomesUSP6NL 
Exome Variant ServerUSP6NL
ExAC (Exome Aggregation Consortium)ENSG00000148429
GNOMAD BrowserENSG00000148429
Varsome BrowserUSP6NL
Genetic variants : HAPMAP9712
Genomic Variants (DGV)USP6NL [DGVbeta]
DECIPHERUSP6NL [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisUSP6NL 
Mutations
ICGC Data PortalUSP6NL 
TCGA Data PortalUSP6NL 
Broad Tumor PortalUSP6NL
OASIS PortalUSP6NL [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICUSP6NL  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDUSP6NL
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 USP6NL
DgiDB (Drug Gene Interaction Database)USP6NL
DoCM (Curated mutations)USP6NL (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)USP6NL (select a term)
intoGenUSP6NL
Cancer3DUSP6NL(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605405   
Orphanet
DisGeNETUSP6NL
MedgenUSP6NL
Genetic Testing Registry USP6NL
NextProtQ92738 [Medical]
TSGene9712
GENETestsUSP6NL
Target ValidationUSP6NL
Huge Navigator USP6NL [HugePedia]
snp3D : Map Gene to Disease9712
BioCentury BCIQUSP6NL
ClinGenUSP6NL
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9712
Chemical/Pharm GKB GenePA134955568
Clinical trialUSP6NL
Miscellaneous
canSAR (ICR)USP6NL (select the gene name)
DataMed IndexUSP6NL
Probes
Litterature
PubMed35 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineUSP6NL
EVEXUSP6NL
GoPubMedUSP6NL
iHOPUSP6NL
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Jan 17 18:45:25 CET 2019
Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.