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

RALY (RALY heterogeneous nuclear ribonucleoprotein)

Identity

Alias_namesRNA-binding protein (autoantigenic, hnRNP-associated with lethal yellow)
RNA binding protein, autoantigenic (hnRNP-associated with lethal yellow homolog (mouse))
Alias_symbol (synonym)P542
HNRPCL2
Other alias
HGNC (Hugo) RALY
LocusID (NCBI) 22913
Atlas_Id 54572
Location 20q11.22  [Link to chromosome band 20q11]
Location_base_pair Starts at 33993652 and ends at 34083185 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)
EIF5A (17p13.1) / RALY (20q11.22)ITCH (20q11.22) / RALY (20q11.22)PMEPA1 (20q13.31) / RALY (20q11.22)
RALY (20q11.22) / DEFB123 (20q11.21)RALY (20q11.22) / JUP (17q21.2)RALY (20q11.22) / KPNB1 (17q21.32)
RALY (20q11.22) / LOC550643 ()RALY (20q11.22) / RALY (20q11.22)TPX2 (20q11.21) / RALY (20q11.22)
TRIM15 (6p22.1) / RALY (20q11.22)TRPC4AP (20q11.22) / RALY (20q11.22)ITCH 20q11.22 / RALY 20q11.22
PMEPA1 20q13.31 / RALY 20q11.22RALY 20q11.22 / DEFB123 20q11.21TPX2 20q11.21 / RALY 20q11.22
TRPC4AP 20q11.22 / RALY 20q11.22

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)RALY   15921
Cards
Entrez_Gene (NCBI)RALY  22913  RALY heterogeneous nuclear ribonucleoprotein
AliasesHNRPCL2; P542
GeneCards (Weizmann)RALY
Ensembl hg19 (Hinxton)ENSG00000125970 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000125970 [Gene_View]  chr20:33993652-34083185 [Contig_View]  RALY [Vega]
ICGC DataPortalENSG00000125970
TCGA cBioPortalRALY
AceView (NCBI)RALY
Genatlas (Paris)RALY
WikiGenes22913
SOURCE (Princeton)RALY
Genetics Home Reference (NIH)RALY
Genomic and cartography
GoldenPath hg38 (UCSC)RALY  -     chr20:33993652-34083185 +  20q11.22   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RALY  -     20q11.22   [Description]    (hg19-Feb_2009)
EnsemblRALY - 20q11.22 [CytoView hg19]  RALY - 20q11.22 [CytoView hg38]
Mapping of homologs : NCBIRALY [Mapview hg19]  RALY [Mapview hg38]
OMIM614663   
Gene and transcription
Genbank (Entrez)AF148457 AK222915 AK226085 AK291054 AK291079
RefSeq transcript (Entrez)NM_007367 NM_016732
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RALY
Cluster EST : UnigeneHs.136947 [ NCBI ]
CGAP (NCI)Hs.136947
Alternative Splicing GalleryENSG00000125970
Gene ExpressionRALY [ NCBI-GEO ]   RALY [ EBI - ARRAY_EXPRESS ]   RALY [ SEEK ]   RALY [ MEM ]
Gene Expression Viewer (FireBrowse)RALY [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)22913
GTEX Portal (Tissue expression)RALY
Human Protein AtlasENSG00000125970-RALY [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UKM9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UKM9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UKM9
Splice isoforms : SwissVarQ9UKM9
PhosPhoSitePlusQ9UKM9
Domaine pattern : Prosite (Expaxy)RRM (PS50102)   
Domains : Interpro (EBI)hnRNP_C    Nucleotide-bd_a/b_plait    RRM_dom   
Domain families : Pfam (Sanger)RRM_1 (PF00076)   
Domain families : Pfam (NCBI)pfam00076   
Domain families : Smart (EMBL)RRM (SM00360)  
Conserved Domain (NCBI)RALY
DMDM Disease mutations22913
Blocks (Seattle)RALY
PDB (SRS)1WF1   
PDB (PDBSum)1WF1   
PDB (IMB)1WF1   
PDB (RSDB)1WF1   
Structural Biology KnowledgeBase1WF1   
SCOP (Structural Classification of Proteins)1WF1   
CATH (Classification of proteins structures)1WF1   
SuperfamilyQ9UKM9
Human Protein Atlas [tissue]ENSG00000125970-RALY [tissue]
Peptide AtlasQ9UKM9
HPRD11480
IPIIPI00216044   IPI00514496   IPI00011268   IPI00640938   IPI00641351   IPI00642213   
Protein Interaction databases
DIP (DOE-UCLA)Q9UKM9
IntAct (EBI)Q9UKM9
FunCoupENSG00000125970
BioGRIDRALY
STRING (EMBL)RALY
ZODIACRALY
Ontologies - Pathways
QuickGOQ9UKM9
Ontology : AmiGOmRNA splicing, via spliceosome  transcription cofactor activity  RNA binding  protein binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  catalytic step 2 spliceosome  regulation of nucleic acid-templated transcription  regulation of cholesterol homeostasis  
Ontology : EGO-EBImRNA splicing, via spliceosome  transcription cofactor activity  RNA binding  protein binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  catalytic step 2 spliceosome  regulation of nucleic acid-templated transcription  regulation of cholesterol homeostasis  
NDEx NetworkRALY
Atlas of Cancer Signalling NetworkRALY
Wikipedia pathwaysRALY
Orthology - Evolution
OrthoDB22913
GeneTree (enSembl)ENSG00000125970
Phylogenetic Trees/Animal Genes : TreeFamRALY
HOVERGENQ9UKM9
HOGENOMQ9UKM9
Homologs : HomoloGeneRALY
Homology/Alignments : Family Browser (UCSC)RALY
Gene fusions - Rearrangements
Fusion : MitelmanITCH/RALY [20q11.22/20q11.22]  [dup(20)(q11q11)]  [t(20;20)(q11;q11)]  
Fusion : MitelmanPMEPA1/RALY [20q13.31/20q11.22]  [t(20;20)(q11;q13)]  
Fusion : MitelmanRALY/DEFB123 [20q11.22/20q11.21]  [t(20;20)(q11;q11)]  
Fusion : MitelmanTPX2/RALY [20q11.21/20q11.22]  [t(20;20)(q11;q11)]  
Fusion : MitelmanTRPC4AP/RALY [20q11.22/20q11.22]  [t(20;20)(q11;q11)]  
Fusion: TCGA_MDACCITCH 20q11.22 RALY 20q11.22 BRCA
Fusion: TCGA_MDACCPMEPA1 20q13.31 RALY 20q11.22 BRCA
Fusion: TCGA_MDACCRALY 20q11.22 DEFB123 20q11.21 LUAD
Fusion: TCGA_MDACCTPX2 20q11.21 RALY 20q11.22 HNSC
Fusion: TCGA_MDACCTRPC4AP 20q11.22 RALY 20q11.22 BRCA
Tumor Fusion PortalRALY
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRALY [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RALY
dbVarRALY
ClinVarRALY
1000_GenomesRALY 
Exome Variant ServerRALY
ExAC (Exome Aggregation Consortium)ENSG00000125970
GNOMAD BrowserENSG00000125970
Genetic variants : HAPMAP22913
Genomic Variants (DGV)RALY [DGVbeta]
DECIPHERRALY [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRALY 
Mutations
ICGC Data PortalRALY 
TCGA Data PortalRALY 
Broad Tumor PortalRALY
OASIS PortalRALY [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRALY  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRALY
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch RALY
DgiDB (Drug Gene Interaction Database)RALY
DoCM (Curated mutations)RALY (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RALY (select a term)
intoGenRALY
Cancer3DRALY(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614663   
Orphanet
DisGeNETRALY
MedgenRALY
Genetic Testing Registry RALY
NextProtQ9UKM9 [Medical]
TSGene22913
GENETestsRALY
Target ValidationRALY
Huge Navigator RALY [HugePedia]
snp3D : Map Gene to Disease22913
BioCentury BCIQRALY
ClinGenRALY
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22913
Chemical/Pharm GKB GenePA34201
Clinical trialRALY
Miscellaneous
canSAR (ICR)RALY (select the gene name)
Probes
Litterature
PubMed45 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRALY
EVEXRALY
GoPubMedRALY
iHOPRALY
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 : Tue Nov 21 14:31:39 CET 2017

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.