Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CYSTM1 (cysteine rich transmembrane module containing 1)

Identity

Alias_namesC5orf32
chromosome 5 open reading frame 32
Alias_symbol (synonym)ORF1-FL49
Other alias
HGNC (Hugo) CYSTM1
LocusID (NCBI) 84418
Atlas_Id 62275
Location 5q31.3  [Link to chromosome band 5q31]
Location_base_pair Starts at 140175068 and ends at 140243789 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ANKHD1 (5q31.3) / CYSTM1 (5q31.3)NRG2 (5q31.2) / CYSTM1 (5q31.3)

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)CYSTM1   30239
Cards
Entrez_Gene (NCBI)CYSTM1  84418  cysteine rich transmembrane module containing 1
AliasesC5orf32; ORF1-FL49
GeneCards (Weizmann)CYSTM1
Ensembl hg19 (Hinxton) [Gene_View]
Ensembl hg38 (Hinxton) [Gene_View]  chr5:140175068-140243789 [Contig_View]  CYSTM1 [Vega]
TCGA cBioPortalCYSTM1
AceView (NCBI)CYSTM1
Genatlas (Paris)CYSTM1
WikiGenes84418
SOURCE (Princeton)CYSTM1
Genetics Home Reference (NIH)CYSTM1
Genomic and cartography
GoldenPath hg38 (UCSC)CYSTM1  -     chr5:140175068-140243789 +  5q31.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CYSTM1  -     5q31.3   [Description]    (hg19-Feb_2009)
EnsemblCYSTM1 - 5q31.3 [CytoView hg19]  CYSTM1 - 5q31.3 [CytoView hg38]
Mapping of homologs : NCBICYSTM1 [Mapview hg19]  CYSTM1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AJ245877 AK225992 AK311640 AK312045 BC013643
RefSeq transcript (Entrez)NM_032412
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CYSTM1
Cluster EST : UnigeneHs.529798 [ NCBI ]
CGAP (NCI)Hs.529798
Gene ExpressionCYSTM1 [ NCBI-GEO ]   CYSTM1 [ EBI - ARRAY_EXPRESS ]   CYSTM1 [ SEEK ]   CYSTM1 [ MEM ]
Gene Expression Viewer (FireBrowse)CYSTM1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)84418
GTEX Portal (Tissue expression)CYSTM1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H1C7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H1C7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H1C7
Splice isoforms : SwissVarQ9H1C7
PhosPhoSitePlusQ9H1C7
Domains : Interpro (EBI)CYSTM_dom   
Domain families : Pfam (Sanger)CYSTM (PF12734)   
Domain families : Pfam (NCBI)pfam12734   
Conserved Domain (NCBI)CYSTM1
DMDM Disease mutations84418
Blocks (Seattle)CYSTM1
SuperfamilyQ9H1C7
Peptide AtlasQ9H1C7
HPRD15091
IPIIPI00382821   
Protein Interaction databases
DIP (DOE-UCLA)Q9H1C7
IntAct (EBI)Q9H1C7
BioGRIDCYSTM1
STRING (EMBL)CYSTM1
ZODIACCYSTM1
Ontologies - Pathways
QuickGOQ9H1C7
Ontology : AmiGOmolecular_function  plasma membrane  biological_process  integral component of membrane  neutrophil degranulation  extracellular exosome  tertiary granule membrane  
Ontology : EGO-EBImolecular_function  plasma membrane  biological_process  integral component of membrane  neutrophil degranulation  extracellular exosome  tertiary granule membrane  
NDEx NetworkCYSTM1
Atlas of Cancer Signalling NetworkCYSTM1
Wikipedia pathwaysCYSTM1
Orthology - Evolution
OrthoDB84418
Phylogenetic Trees/Animal Genes : TreeFamCYSTM1
HOVERGENQ9H1C7
HOGENOMQ9H1C7
Homologs : HomoloGeneCYSTM1
Homology/Alignments : Family Browser (UCSC)CYSTM1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCYSTM1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CYSTM1
dbVarCYSTM1
ClinVarCYSTM1
1000_GenomesCYSTM1 
Exome Variant ServerCYSTM1
ExAC (Exome Aggregation Consortium)CYSTM1 (select the gene name)
Genetic variants : HAPMAP84418
Genomic Variants (DGV)CYSTM1 [DGVbeta]
DECIPHERCYSTM1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCYSTM1 
Mutations
ICGC Data PortalCYSTM1 
TCGA Data PortalCYSTM1 
Broad Tumor PortalCYSTM1
OASIS PortalCYSTM1 [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDCYSTM1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CYSTM1
DgiDB (Drug Gene Interaction Database)CYSTM1
DoCM (Curated mutations)CYSTM1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CYSTM1 (select a term)
intoGenCYSTM1
Cancer3DCYSTM1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenCYSTM1
Genetic Testing Registry CYSTM1
NextProtQ9H1C7 [Medical]
TSGene84418
GENETestsCYSTM1
Target ValidationCYSTM1
Huge Navigator CYSTM1 [HugePedia]
snp3D : Map Gene to Disease84418
BioCentury BCIQCYSTM1
ClinGenCYSTM1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD84418
Chemical/Pharm GKB GenePA162380028
Clinical trialCYSTM1
Miscellaneous
canSAR (ICR)CYSTM1 (select the gene name)
Probes
Litterature
PubMed9 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCYSTM1
EVEXCYSTM1
GoPubMedCYSTM1
iHOPCYSTM1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 15:45:11 CEST 2017

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