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TRERF1 (transcriptional regulating factor 1)

Identity

Alias_namesBCAR2
breast cancer anti-estrogen resistance 2
Alias_symbol (synonym)TReP-132
HSA277276
RAPA
dJ139D8.5
Other aliasTREP132
HGNC (Hugo) TRERF1
LocusID (NCBI) 55809
Atlas_Id 53315
Location 6p21.1  [Link to chromosome band 6p21]
Location_base_pair Starts at 42224933 and ends at 42452051 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)
ADGRF1 (6p12.3) / TRERF1 (6p21.1)CDK5RAP3 (17q21.32) / TRERF1 (6p21.1)PUM1 (1p35.2) / TRERF1 (6p21.1)
TFEB (6p21.1) / TRERF1 (6p21.1)TRERF1 (6p21.1) / AIF1 (6p21.33)TRERF1 (6p21.1) / GNMT (6p21.1)
TRERF1 (6p21.1) / HSPB8 (12q24.23)TRERF1 (6p21.1) / OR2H1 (6p22.1)TRERF1 (6p21.1) / PCLO (7q21.11)
TRERF1 (6p21.1) / TMEM132C (12q24.32)TRERF1 (6p21.1) / VARS2 (6p21.33)GPR110 TRERF1 6p21.1
TRERF1 6p21.1 / AIF1 6p21.33TRERF1 6p21.1 / GNMT 6p21.1TRERF1 6p21.1 / OR2H1 6p22.1
TRERF1 6p21.1 / TMEM132C 12q24.32TRERF1 6p21.1 / VARS2 6p21.33

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) [ 8 ]
  t(1;6)(p35;p21) PUM1/TRERF1
t(6;6)(p12;p21) ADGRF1/TRERF1
TFEB/TRERF1 (6p21)
TRERF1/AIF1 (6p21)
TRERF1/GNMT (6p21)
TRERF1/VARS2 (6p21)
t(6;6)(p21;p22) TRERF1/OR2H1
t(6;12)(p21;q24) TRERF1/TMEM132C


External links

Nomenclature
HGNC (Hugo)TRERF1   18273
Cards
Entrez_Gene (NCBI)TRERF1  55809  transcriptional regulating factor 1
AliasesBCAR2; HSA277276; RAPA; TREP132; 
TReP-132; dJ139D8.5
GeneCards (Weizmann)TRERF1
Ensembl hg19 (Hinxton)ENSG00000124496 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000124496 [Gene_View]  ENSG00000124496 [Sequence]  chr6:42224933-42452051 [Contig_View]  TRERF1 [Vega]
ICGC DataPortalENSG00000124496
TCGA cBioPortalTRERF1
AceView (NCBI)TRERF1
Genatlas (Paris)TRERF1
WikiGenes55809
SOURCE (Princeton)TRERF1
Genetics Home Reference (NIH)TRERF1
Genomic and cartography
GoldenPath hg38 (UCSC)TRERF1  -     chr6:42224933-42452051 -  6p21.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TRERF1  -     6p21.1   [Description]    (hg19-Feb_2009)
EnsemblTRERF1 - 6p21.1 [CytoView hg19]  TRERF1 - 6p21.1 [CytoView hg38]
Mapping of homologs : NCBITRERF1 [Mapview hg19]  TRERF1 [Mapview hg38]
OMIM610322   
Gene and transcription
Genbank (Entrez)AF111801 AF297872 AJ277275 AJ277276 AK002096
RefSeq transcript (Entrez)NM_001297573 NM_018415 NM_033501 NM_033502
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TRERF1
Cluster EST : UnigeneHs.485392 [ NCBI ]
CGAP (NCI)Hs.485392
Alternative Splicing GalleryENSG00000124496
Gene ExpressionTRERF1 [ NCBI-GEO ]   TRERF1 [ EBI - ARRAY_EXPRESS ]   TRERF1 [ SEEK ]   TRERF1 [ MEM ]
Gene Expression Viewer (FireBrowse)TRERF1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55809
GTEX Portal (Tissue expression)TRERF1
Human Protein AtlasENSG00000124496-TRERF1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96PN7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96PN7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96PN7
Splice isoforms : SwissVarQ96PN7
PhosPhoSitePlusQ96PN7
Domaine pattern : Prosite (Expaxy)ELM2 (PS51156)    SANT (PS51293)    ZINC_FINGER_C2H2_1 (PS00028)    ZINC_FINGER_C2H2_2 (PS50157)   
Domains : Interpro (EBI)ELM2_dom    Homeobox-like_sf    SANT/Myb    SANT_dom    Znf_C2H2_sf    Znf_C2H2_type   
Domain families : Pfam (Sanger)ELM2 (PF01448)   
Domain families : Pfam (NCBI)pfam01448   
Domain families : Smart (EMBL)ELM2 (SM01189)  SANT (SM00717)  ZnF_C2H2 (SM00355)  
Conserved Domain (NCBI)TRERF1
DMDM Disease mutations55809
Blocks (Seattle)TRERF1
SuperfamilyQ96PN7
Human Protein Atlas [tissue]ENSG00000124496-TRERF1 [tissue]
Peptide AtlasQ96PN7
HPRD11647
IPIIPI00044583   IPI00413735   IPI00376357   IPI00853356   IPI00853414   IPI01014893   IPI00103716   
Protein Interaction databases
DIP (DOE-UCLA)Q96PN7
IntAct (EBI)Q96PN7
FunCoupENSG00000124496
BioGRIDTRERF1
STRING (EMBL)TRERF1
ZODIACTRERF1
Ontologies - Pathways
QuickGOQ96PN7
Ontology : AmiGOhistone deacetylase complex  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity  DNA-binding transcription factor activity  transcription coregulator activity  nucleus  nucleus  nucleoplasm  transcription factor complex  nucleolus  cytosol  regulation of transcription by RNA polymerase II  steroid biosynthetic process  cholesterol catabolic process  multicellular organism development  transcription factor binding  transcription factor binding  DNA binding, bending  nuclear receptor transcription coactivator activity  homeostatic process  transcription regulatory region DNA binding  positive regulation of transcription, DNA-templated  metal ion binding  regulation of hormone biosynthetic process  
Ontology : EGO-EBIhistone deacetylase complex  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity  DNA-binding transcription factor activity  transcription coregulator activity  nucleus  nucleus  nucleoplasm  transcription factor complex  nucleolus  cytosol  regulation of transcription by RNA polymerase II  steroid biosynthetic process  cholesterol catabolic process  multicellular organism development  transcription factor binding  transcription factor binding  DNA binding, bending  nuclear receptor transcription coactivator activity  homeostatic process  transcription regulatory region DNA binding  positive regulation of transcription, DNA-templated  metal ion binding  regulation of hormone biosynthetic process  
NDEx NetworkTRERF1
Atlas of Cancer Signalling NetworkTRERF1
Wikipedia pathwaysTRERF1
Orthology - Evolution
OrthoDB55809
GeneTree (enSembl)ENSG00000124496
Phylogenetic Trees/Animal Genes : TreeFamTRERF1
HOVERGENQ96PN7
HOGENOMQ96PN7
Homologs : HomoloGeneTRERF1
Homology/Alignments : Family Browser (UCSC)TRERF1
Gene fusions - Rearrangements
Fusion : MitelmanADGRF1/TRERF1 [6p12.3/6p21.1]  [t(6;6)(p12;p21)]  
Fusion : MitelmanPUM1/TRERF1 [1p35.2/6p21.1]  [t(1;6)(p35;p21)]  
Fusion : MitelmanTFEB/TRERF1 [6p21.1/6p21.1]  [t(6;6)(p21;p21)]  
Fusion : MitelmanTRERF1/AIF1 [6p21.1/6p21.33]  [t(6;6)(p21;p21)]  
Fusion : MitelmanTRERF1/GNMT [6p21.1/6p21.1]  [t(6;6)(p21;p21)]  
Fusion : MitelmanTRERF1/OR2H1 [6p21.1/6p22.1]  [t(6;6)(p21;p22)]  
Fusion : MitelmanTRERF1/TMEM132C [6p21.1/12q24.32]  [t(6;12)(p21;q24)]  
Fusion : MitelmanTRERF1/VARS2 [6p21.1/6p21.33]  [t(6;6)(p21;p21)]  
Fusion PortalGPR110 TRERF1 6p21.1 OV
Fusion PortalTRERF1 6p21.1 AIF1 6p21.33 LUAD
Fusion PortalTRERF1 6p21.1 GNMT 6p21.1 LUAD
Fusion PortalTRERF1 6p21.1 OR2H1 6p22.1 KIRC
Fusion PortalTRERF1 6p21.1 TMEM132C 12q24.32 BRCA
Fusion PortalTRERF1 6p21.1 VARS2 6p21.33 BRCA
Fusion : QuiverTRERF1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTRERF1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRERF1
dbVarTRERF1
ClinVarTRERF1
1000_GenomesTRERF1 
Exome Variant ServerTRERF1
ExAC (Exome Aggregation Consortium)ENSG00000124496
GNOMAD BrowserENSG00000124496
Varsome BrowserTRERF1
Genetic variants : HAPMAP55809
Genomic Variants (DGV)TRERF1 [DGVbeta]
DECIPHERTRERF1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTRERF1 
Mutations
ICGC Data PortalTRERF1 
TCGA Data PortalTRERF1 
Broad Tumor PortalTRERF1
OASIS PortalTRERF1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTRERF1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTRERF1
intOGen PortalTRERF1
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 TRERF1
DgiDB (Drug Gene Interaction Database)TRERF1
DoCM (Curated mutations)TRERF1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRERF1 (select a term)
intoGenTRERF1
Cancer3DTRERF1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610322   
Orphanet
DisGeNETTRERF1
MedgenTRERF1
Genetic Testing Registry TRERF1
NextProtQ96PN7 [Medical]
TSGene55809
GENETestsTRERF1
Target ValidationTRERF1
Huge Navigator TRERF1 [HugePedia]
snp3D : Map Gene to Disease55809
BioCentury BCIQTRERF1
ClinGenTRERF1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55809
Chemical/Pharm GKB GenePA134923539
Clinical trialTRERF1
Miscellaneous
canSAR (ICR)TRERF1 (select the gene name)
Probes
Litterature
PubMed25 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRERF1
EVEXTRERF1
GoPubMedTRERF1
iHOPTRERF1
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 6 11:46:41 CET 2018

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