Atlas of Genetics and Cytogenetics in Oncology and Haematology


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RTF1 (RTF1 homolog, Paf1/RNA polymerase II complex component)

Identity

Alias_namesKIAA0252
KIAA0252
Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae)
Other aliasGTL7
HGNC (Hugo) RTF1
LocusID (NCBI) 23168
Atlas_Id 54595
Location 15q15.1  [Link to chromosome band 15q15]
Location_base_pair Starts at 41417104 and ends at 41483563 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
IRGQ (19q13.31) / RTF1 (15q15.1)LENG8 (19q13.42) / RTF1 (15q15.1)PRPF8 (17p13.3) / RTF1 (15q15.1)
RTF1 (15q15.1) / RTF1 (15q15.1)TYRO3 (15q15.1) / RTF1 (15q15.1)

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)RTF1   28996
Cards
Entrez_Gene (NCBI)RTF1  23168  RTF1 homolog, Paf1/RNA polymerase II complex component
AliasesGTL7; KIAA0252
GeneCards (Weizmann)RTF1
Ensembl hg19 (Hinxton)ENSG00000137815 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000137815 [Gene_View]  chr15:41417104-41483563 [Contig_View]  RTF1 [Vega]
ICGC DataPortalENSG00000137815
TCGA cBioPortalRTF1
AceView (NCBI)RTF1
Genatlas (Paris)RTF1
WikiGenes23168
SOURCE (Princeton)RTF1
Genetics Home Reference (NIH)RTF1
Genomic and cartography
GoldenPath hg38 (UCSC)RTF1  -     chr15:41417104-41483563 +  15q15.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RTF1  -     15q15.1   [Description]    (hg19-Feb_2009)
EnsemblRTF1 - 15q15.1 [CytoView hg19]  RTF1 - 15q15.1 [CytoView hg38]
Mapping of homologs : NCBIRTF1 [Mapview hg19]  RTF1 [Mapview hg38]
OMIM611633   
Gene and transcription
Genbank (Entrez)AI871361 AK292302 AW291085 BC015052 BF979715
RefSeq transcript (Entrez)NM_015138
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RTF1
Cluster EST : UnigeneHs.511096 [ NCBI ]
CGAP (NCI)Hs.511096
Alternative Splicing GalleryENSG00000137815
Gene ExpressionRTF1 [ NCBI-GEO ]   RTF1 [ EBI - ARRAY_EXPRESS ]   RTF1 [ SEEK ]   RTF1 [ MEM ]
Gene Expression Viewer (FireBrowse)RTF1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23168
GTEX Portal (Tissue expression)RTF1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ92541   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ92541  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ92541
Splice isoforms : SwissVarQ92541
PhosPhoSitePlusQ92541
Domaine pattern : Prosite (Expaxy)PLUS3 (PS51360)   
Domains : Interpro (EBI)Plus-3_dom    Rtf1   
Domain families : Pfam (Sanger)Plus-3 (PF03126)   
Domain families : Pfam (NCBI)pfam03126   
Domain families : Smart (EMBL)Plus3 (SM00719)  
Conserved Domain (NCBI)RTF1
DMDM Disease mutations23168
Blocks (Seattle)RTF1
PDB (SRS)2BZE    2DB9    3U1U    4L1P    4L1U   
PDB (PDBSum)2BZE    2DB9    3U1U    4L1P    4L1U   
PDB (IMB)2BZE    2DB9    3U1U    4L1P    4L1U   
PDB (RSDB)2BZE    2DB9    3U1U    4L1P    4L1U   
Structural Biology KnowledgeBase2BZE    2DB9    3U1U    4L1P    4L1U   
SCOP (Structural Classification of Proteins)2BZE    2DB9    3U1U    4L1P    4L1U   
CATH (Classification of proteins structures)2BZE    2DB9    3U1U    4L1P    4L1U   
SuperfamilyQ92541
Human Protein AtlasENSG00000137815
Peptide AtlasQ92541
HPRD11071
IPIIPI00303832   
Protein Interaction databases
DIP (DOE-UCLA)Q92541
IntAct (EBI)Q92541
FunCoupENSG00000137815
BioGRIDRTF1
STRING (EMBL)RTF1
ZODIACRTF1
Ontologies - Pathways
QuickGOQ92541
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  transcription factor activity, RNA polymerase II transcription factor binding  endodermal cell fate commitment  blastocyst growth  single-stranded DNA binding  RNA binding  protein binding  nucleoplasm  nucleolus  transcription from RNA polymerase II promoter  transcription elongation from RNA polymerase II promoter  Wnt signaling pathway  protein ubiquitination  Cdc73/Paf1 complex  stem cell population maintenance  positive regulation of transcription elongation from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  positive regulation of histone H3-K4 methylation  histone H3-K4 trimethylation  RNA polymerase II C-terminal domain phosphoserine binding  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  transcription factor activity, RNA polymerase II transcription factor binding  endodermal cell fate commitment  blastocyst growth  single-stranded DNA binding  RNA binding  protein binding  nucleoplasm  nucleolus  transcription from RNA polymerase II promoter  transcription elongation from RNA polymerase II promoter  Wnt signaling pathway  protein ubiquitination  Cdc73/Paf1 complex  stem cell population maintenance  positive regulation of transcription elongation from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  positive regulation of histone H3-K4 methylation  histone H3-K4 trimethylation  RNA polymerase II C-terminal domain phosphoserine binding  
NDEx NetworkRTF1
Atlas of Cancer Signalling NetworkRTF1
Wikipedia pathwaysRTF1
Orthology - Evolution
OrthoDB23168
GeneTree (enSembl)ENSG00000137815
Phylogenetic Trees/Animal Genes : TreeFamRTF1
HOVERGENQ92541
HOGENOMQ92541
Homologs : HomoloGeneRTF1
Homology/Alignments : Family Browser (UCSC)RTF1
Gene fusions - Rearrangements
Fusion : MitelmanTYRO3/RTF1 [15q15.1/15q15.1]  [t(15;15)(q15;q15)]  
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRTF1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RTF1
dbVarRTF1
ClinVarRTF1
1000_GenomesRTF1 
Exome Variant ServerRTF1
ExAC (Exome Aggregation Consortium)RTF1 (select the gene name)
Genetic variants : HAPMAP23168
Genomic Variants (DGV)RTF1 [DGVbeta]
DECIPHERRTF1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRTF1 
Mutations
ICGC Data PortalRTF1 
TCGA Data PortalRTF1 
Broad Tumor PortalRTF1
OASIS PortalRTF1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRTF1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRTF1
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 RTF1
DgiDB (Drug Gene Interaction Database)RTF1
DoCM (Curated mutations)RTF1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RTF1 (select a term)
intoGenRTF1
Cancer3DRTF1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611633   
Orphanet
MedgenRTF1
Genetic Testing Registry RTF1
NextProtQ92541 [Medical]
TSGene23168
GENETestsRTF1
Target ValidationRTF1
Huge Navigator RTF1 [HugePedia]
snp3D : Map Gene to Disease23168
BioCentury BCIQRTF1
ClinGenRTF1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23168
Chemical/Pharm GKB GenePA134961778
Clinical trialRTF1
Miscellaneous
canSAR (ICR)RTF1 (select the gene name)
Probes
Litterature
PubMed36 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRTF1
EVEXRTF1
GoPubMedRTF1
iHOPRTF1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jun 7 12:54:07 CEST 2017

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