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

LYRM4 (LYR motif containing 4)

Identity

Alias_namesC6orf149
chromosome 6 open reading frame 149
Alias_symbol (synonym)CGI-203
ISD11
Other aliasCOXPD19
HGNC (Hugo) LYRM4
LocusID (NCBI) 57128
Atlas_Id 68728
Location 6p25.1  [Link to chromosome band 6p25]
Location_base_pair Starts at 5186600 and ends at 5260950 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)
E2F6 (2p25.1) / LYRM4 (6p25.1)LYRM4 (6p25.1) / PSIP1 (9p22.3)RNF144B (6p22.3) / LYRM4 (6p25.1)
RPP40 (6p25.1) / LYRM4 (6p25.1)RREB1 (6p24.3) / LYRM4 (6p25.1)RPP40 LYRM4
E2F6 LYRM4RNF144B LYRM4RREB1 LYRM4

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) [ 4 ]
  t(2;6)(p25;p25) E2F6/LYRM4
t(6;6)(p22;p25) RNF144B/LYRM4
t(6;6)(p24;p25) RREB1/LYRM4
t(6;6)(p25;p25) RPP40/LYRM4


External links

Nomenclature
HGNC (Hugo)LYRM4   21365
Cards
Entrez_Gene (NCBI)LYRM4  57128  LYR motif containing 4
AliasesC6orf149; CGI-203; COXPD19; ISD11
GeneCards (Weizmann)LYRM4
Ensembl hg19 (Hinxton)ENSG00000214113 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000214113 [Gene_View]  ENSG00000214113 [Sequence]  chr6:5186600-5260950 [Contig_View]  LYRM4 [Vega]
ICGC DataPortalENSG00000214113
TCGA cBioPortalLYRM4
AceView (NCBI)LYRM4
Genatlas (Paris)LYRM4
WikiGenes57128
SOURCE (Princeton)LYRM4
Genetics Home Reference (NIH)LYRM4
Genomic and cartography
GoldenPath hg38 (UCSC)LYRM4  -     chr6:5186600-5260950 -  6p25.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LYRM4  -     6p25.1   [Description]    (hg19-Feb_2009)
EnsemblLYRM4 - 6p25.1 [CytoView hg19]  LYRM4 - 6p25.1 [CytoView hg38]
Mapping of homologs : NCBILYRM4 [Mapview hg19]  LYRM4 [Mapview hg38]
OMIM613311   615595   
Gene and transcription
Genbank (Entrez)AA764791 AF088060 AF170070 AF258559 AF285118
RefSeq transcript (Entrez)NM_001164840 NM_001164841 NM_001318782 NM_001318783 NM_020408
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LYRM4
Cluster EST : UnigeneHs.387755 [ NCBI ]
CGAP (NCI)Hs.387755
Alternative Splicing GalleryENSG00000214113
Gene ExpressionLYRM4 [ NCBI-GEO ]   LYRM4 [ EBI - ARRAY_EXPRESS ]   LYRM4 [ SEEK ]   LYRM4 [ MEM ]
Gene Expression Viewer (FireBrowse)LYRM4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57128
GTEX Portal (Tissue expression)LYRM4
Human Protein AtlasENSG00000214113-LYRM4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9HD34   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9HD34  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9HD34
Splice isoforms : SwissVarQ9HD34
PhosPhoSitePlusQ9HD34
Domains : Interpro (EBI)Complex1_LYR   
Domain families : Pfam (Sanger)Complex1_LYR (PF05347)   
Domain families : Pfam (NCBI)pfam05347   
Conserved Domain (NCBI)LYRM4
DMDM Disease mutations57128
Blocks (Seattle)LYRM4
SuperfamilyQ9HD34
Human Protein Atlas [tissue]ENSG00000214113-LYRM4 [tissue]
Peptide AtlasQ9HD34
HPRD12855
IPIIPI00006979   IPI00103666   IPI00944597   IPI00947056   IPI00946429   IPI00944550   IPI00947151   
Protein Interaction databases
DIP (DOE-UCLA)Q9HD34
IntAct (EBI)Q9HD34
FunCoupENSG00000214113
BioGRIDLYRM4
STRING (EMBL)LYRM4
ZODIACLYRM4
Ontologies - Pathways
QuickGOQ9HD34
Ontology : AmiGOmitochondrial matrix  nuclear body  small molecule metabolic process  
Ontology : EGO-EBImitochondrial matrix  nuclear body  small molecule metabolic process  
NDEx NetworkLYRM4
Atlas of Cancer Signalling NetworkLYRM4
Wikipedia pathwaysLYRM4
Orthology - Evolution
OrthoDB57128
GeneTree (enSembl)ENSG00000214113
Phylogenetic Trees/Animal Genes : TreeFamLYRM4
HOVERGENQ9HD34
HOGENOMQ9HD34
Homologs : HomoloGeneLYRM4
Homology/Alignments : Family Browser (UCSC)LYRM4
Gene fusions - Rearrangements
Fusion PortalRPP40 LYRM4
Fusion PortalE2F6 LYRM4
Fusion PortalRNF144B LYRM4
Fusion PortalRREB1 LYRM4
Fusion : QuiverLYRM4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLYRM4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LYRM4
dbVarLYRM4
ClinVarLYRM4
1000_GenomesLYRM4 
Exome Variant ServerLYRM4
ExAC (Exome Aggregation Consortium)ENSG00000214113
GNOMAD BrowserENSG00000214113
Varsome BrowserLYRM4
Genetic variants : HAPMAP57128
Genomic Variants (DGV)LYRM4 [DGVbeta]
DECIPHERLYRM4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLYRM4 
Mutations
ICGC Data PortalLYRM4 
TCGA Data PortalLYRM4 
Broad Tumor PortalLYRM4
OASIS PortalLYRM4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLYRM4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLYRM4
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
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
BioMutasearch LYRM4
DgiDB (Drug Gene Interaction Database)LYRM4
DoCM (Curated mutations)LYRM4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LYRM4 (select a term)
intoGenLYRM4
Cancer3DLYRM4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM613311    615595   
Orphanet22684   
DisGeNETLYRM4
MedgenLYRM4
Genetic Testing Registry LYRM4
NextProtQ9HD34 [Medical]
TSGene57128
GENETestsLYRM4
Target ValidationLYRM4
Huge Navigator LYRM4 [HugePedia]
snp3D : Map Gene to Disease57128
BioCentury BCIQLYRM4
ClinGenLYRM4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57128
Chemical/Pharm GKB GenePA162394762
Clinical trialLYRM4
Miscellaneous
canSAR (ICR)LYRM4 (select the gene name)
Probes
Litterature
PubMed1 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLYRM4
EVEXLYRM4
GoPubMedLYRM4
iHOPLYRM4
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 : Mon Jul 30 14:12:05 CEST 2018

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.