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RPN2 (ribophorin II)

Identity

Alias (NCBI)RIBIIR
RPN-II
RPNII
SWP1
HGNC (Hugo) RPN2
HGNC Alias symbSWP1
RPNII
RIBIIR
RPN-II
HGNC Alias nameoligosaccharyltransferase complex subunit (non-catalytic)
LocusID (NCBI) 6185
Atlas_Id 50506
Location 20q11.23  [Link to chromosome band 20q11]
Location_base_pair Starts at 37179330 and ends at 37241619 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)
C5orf42 (5p13.2) / RPN2 (20q11.23)GAPDH (12p13.31) / RPN2 (20q11.23)GPX3 (5q33.1) / RPN2 (20q11.23)
NNAT (20q11.23) / RPN2 (20q11.23)PHF20 (20q11.22) / RPN2 (20q11.23)RPN2 (20q11.23) / HIBADH (7p15.2)
RPN2 (20q11.23) / MED15 (22q11.21)RPN2 (20q11.23) / PMEPA1 (20q13.31)RPN2 (20q11.23) / RPN2 (20q11.23)
RPN2 (20q11.23) / STK24 (13q32.2)UQCC1 (20q11.22) / RPN2 (20q11.23)PHF20 20q11.22 / RPN2 20q11.23

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)RPN2   10382
Cards
Entrez_Gene (NCBI)RPN2    ribophorin II
AliasesRIBIIR; RPN-II; RPNII; SWP1
GeneCards (Weizmann)RPN2
Ensembl hg19 (Hinxton)ENSG00000118705 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000118705 [Gene_View]  ENSG00000118705 [Sequence]  chr20:37179330-37241619 [Contig_View]  RPN2 [Vega]
ICGC DataPortalENSG00000118705
TCGA cBioPortalRPN2
AceView (NCBI)RPN2
Genatlas (Paris)RPN2
SOURCE (Princeton)RPN2
Genetics Home Reference (NIH)RPN2
Genomic and cartography
GoldenPath hg38 (UCSC)RPN2  -     chr20:37179330-37241619 +  20q11.23   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RPN2  -     20q11.23   [Description]    (hg19-Feb_2009)
GoldenPathRPN2 - 20q11.23 [CytoView hg19]  RPN2 - 20q11.23 [CytoView hg38]
ImmunoBaseENSG00000118705
genome Data Viewer NCBIRPN2 [Mapview hg19]  
OMIM180490   
Gene and transcription
Genbank (Entrez)AK096243 AK296126 AK308683 AK315801 BC002380
RefSeq transcript (Entrez)NM_001135771 NM_001324299 NM_001324301 NM_001324302 NM_001324303 NM_001324304 NM_001324305 NM_001324306 NM_002951
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RPN2
Alternative Splicing GalleryENSG00000118705
Gene ExpressionRPN2 [ NCBI-GEO ]   RPN2 [ EBI - ARRAY_EXPRESS ]   RPN2 [ SEEK ]   RPN2 [ MEM ]
Gene Expression Viewer (FireBrowse)RPN2 [ Firebrowse - Broad ]
GenevisibleExpression of RPN2 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6185
GTEX Portal (Tissue expression)RPN2
Human Protein AtlasENSG00000118705-RPN2 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04844   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP04844  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP04844
Splice isoforms : SwissVarP04844
PhosPhoSitePlusP04844
Domains : Interpro (EBI)Swp1   
Domain families : Pfam (Sanger)Ribophorin_II (PF05817)   
Domain families : Pfam (NCBI)pfam05817   
Conserved Domain (NCBI)RPN2
Blocks (Seattle)RPN2
PDB (RSDB)6S7O    6S7T   
PDB Europe6S7O    6S7T   
PDB (PDBSum)6S7O    6S7T   
PDB (IMB)6S7O    6S7T   
Structural Biology KnowledgeBase6S7O    6S7T   
SCOP (Structural Classification of Proteins)6S7O    6S7T   
CATH (Classification of proteins structures)6S7O    6S7T   
SuperfamilyP04844
Human Protein Atlas [tissue]ENSG00000118705-RPN2 [tissue]
Peptide AtlasP04844
HPRD01609
IPIIPI00028635   IPI00936387   IPI00383680   IPI00941764   IPI00552972   IPI00552307   IPI00552146   
Protein Interaction databases
DIP (DOE-UCLA)P04844
IntAct (EBI)P04844
BioGRIDRPN2
STRING (EMBL)RPN2
ZODIACRPN2
Ontologies - Pathways
QuickGOP04844
Ontology : AmiGOautophagosome membrane  dolichyl-diphosphooligosaccharide-protein glycotransferase activity  protein binding  endoplasmic reticulum  endoplasmic reticulum membrane  rough endoplasmic reticulum  cellular protein modification process  protein N-linked glycosylation  protein N-linked glycosylation  aging  oligosaccharyltransferase complex  oligosaccharyltransferase complex  oligosaccharyltransferase complex  membrane  integral component of membrane  nuclear body  protein N-linked glycosylation via asparagine  protein N-linked glycosylation via asparagine  response to drug  ribosome binding  
Ontology : EGO-EBIautophagosome membrane  dolichyl-diphosphooligosaccharide-protein glycotransferase activity  protein binding  endoplasmic reticulum  endoplasmic reticulum membrane  rough endoplasmic reticulum  cellular protein modification process  protein N-linked glycosylation  protein N-linked glycosylation  aging  oligosaccharyltransferase complex  oligosaccharyltransferase complex  oligosaccharyltransferase complex  membrane  integral component of membrane  nuclear body  protein N-linked glycosylation via asparagine  protein N-linked glycosylation via asparagine  response to drug  ribosome binding  
Pathways : KEGGN-Glycan biosynthesis    Protein processing in endoplasmic reticulum   
NDEx NetworkRPN2
Atlas of Cancer Signalling NetworkRPN2
Wikipedia pathwaysRPN2
Orthology - Evolution
OrthoDB6185
GeneTree (enSembl)ENSG00000118705
Phylogenetic Trees/Animal Genes : TreeFamRPN2
HOGENOMP04844
Homologs : HomoloGeneRPN2
Homology/Alignments : Family Browser (UCSC)RPN2
Gene fusions - Rearrangements
Fusion : MitelmanPHF20/RPN2 [20q11.22/20q11.23]  
Fusion : MitelmanRPN2/PMEPA1 [20q11.23/20q13.31]  
Fusion PortalPHF20 20q11.22 RPN2 20q11.23 BRCA
Fusion : QuiverRPN2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRPN2 [hg38]
dbVarRPN2
ClinVarRPN2
MonarchRPN2
1000_GenomesRPN2 
Exome Variant ServerRPN2
GNOMAD BrowserENSG00000118705
Varsome BrowserRPN2
Genomic Variants (DGV)RPN2 [DGVbeta]
DECIPHERRPN2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRPN2 
Mutations
ICGC Data PortalRPN2 
TCGA Data PortalRPN2 
Broad Tumor PortalRPN2
OASIS PortalRPN2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRPN2  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DRPN2
Mutations and Diseases : HGMDRPN2
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 RPN2
DgiDB (Drug Gene Interaction Database)RPN2
DoCM (Curated mutations)RPN2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RPN2 (select a term)
intoGenRPN2
Cancer3DRPN2(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM180490   
Orphanet
DisGeNETRPN2
MedgenRPN2
Genetic Testing Registry RPN2
NextProtP04844 [Medical]
GENETestsRPN2
Target ValidationRPN2
Huge Navigator RPN2 [HugePedia]
ClinGenRPN2
Clinical trials, drugs, therapy
MyCancerGenomeRPN2
Protein Interactions : CTD
Pharm GKB GenePA34778
PharosP04844
Clinical trialRPN2
Miscellaneous
canSAR (ICR)RPN2 (select the gene name)
HarmonizomeRPN2
DataMed IndexRPN2
Probes
Litterature
PubMed135 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXRPN2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 25 19:43:57 CET 2021

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