Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SYNM (synemin)

Identity

Alias (NCBI)DMN
SYN
HGNC (Hugo) SYNM
HGNC Alias symbKIAA0353
SYN
HGNC Alias namesynemin alpha
 synemin beta
HGNC Previous nameDMN
HGNC Previous namedesmuslin
 synemin, intermediate filament protein
LocusID (NCBI) 23336
Atlas_Id 50031
Location 15q26.3  [Link to chromosome band 15q26]
Location_base_pair Starts at 99105080 and ends at 99135593 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)
SYNM (15q26.3) / KIF5B (10p11.22)

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)SYNM   24466
LRG (Locus Reference Genomic)LRG_415
Cards
Entrez_Gene (NCBI)SYNM  23336  synemin
AliasesDMN; SYN
GeneCards (Weizmann)SYNM
Ensembl hg19 (Hinxton)ENSG00000182253 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000182253 [Gene_View]  ENSG00000182253 [Sequence]  chr15:99105080-99135593 [Contig_View]  SYNM [Vega]
ICGC DataPortalENSG00000182253
TCGA cBioPortalSYNM
AceView (NCBI)SYNM
Genatlas (Paris)SYNM
WikiGenes23336
SOURCE (Princeton)SYNM
Genetics Home Reference (NIH)SYNM
Genomic and cartography
GoldenPath hg38 (UCSC)SYNM  -     chr15:99105080-99135593 +  15q26.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SYNM  -     15q26.3   [Description]    (hg19-Feb_2009)
GoldenPathSYNM - 15q26.3 [CytoView hg19]  SYNM - 15q26.3 [CytoView hg38]
ImmunoBaseENSG00000182253
genome Data Viewer NCBISYNM [Mapview hg19]  
OMIM606087   
Gene and transcription
Genbank (Entrez)AB002351 AF359284 AJ310521 AJ310522 AJ697971
RefSeq transcript (Entrez)NM_015286 NM_145728
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SYNM
Alternative Splicing GalleryENSG00000182253
Gene ExpressionSYNM [ NCBI-GEO ]   SYNM [ EBI - ARRAY_EXPRESS ]   SYNM [ SEEK ]   SYNM [ MEM ]
Gene Expression Viewer (FireBrowse)SYNM [ Firebrowse - Broad ]
GenevisibleExpression of SYNM in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23336
GTEX Portal (Tissue expression)SYNM
Human Protein AtlasENSG00000182253-SYNM [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO15061   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO15061  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO15061
Splice isoforms : SwissVarO15061
PhosPhoSitePlusO15061
Domaine pattern : Prosite (Expaxy)IF_ROD_1 (PS00226)    IF_ROD_2 (PS51842)   
Domains : Interpro (EBI)IF_conserved    IF_rod_dom    IF_rod_dom_coil1B    SYNM   
Domain families : Pfam (Sanger)Filament (PF00038)   
Domain families : Pfam (NCBI)pfam00038   
Domain families : Smart (EMBL)Filament (SM01391)  
Conserved Domain (NCBI)SYNM
DMDM Disease mutations23336
Blocks (Seattle)SYNM
PDB (RSDB)6EWO   
PDB Europe6EWO   
PDB (PDBSum)6EWO   
PDB (IMB)6EWO   
Structural Biology KnowledgeBase6EWO   
SCOP (Structural Classification of Proteins)6EWO   
CATH (Classification of proteins structures)6EWO   
SuperfamilyO15061
Human Protein Atlas [tissue]ENSG00000182253-SYNM [tissue]
Peptide AtlasO15061
HPRD07305
IPIIPI00299301   IPI00299302   IPI00921956   
Protein Interaction databases
DIP (DOE-UCLA)O15061
IntAct (EBI)O15061
FunCoupENSG00000182253
BioGRIDSYNM
STRING (EMBL)SYNM
ZODIACSYNM
Ontologies - Pathways
QuickGOO15061
Ontology : AmiGOstructural constituent of cytoskeleton  structural constituent of cytoskeleton  protein binding  intermediate filament  intermediate filament  intermediate filament  adherens junction  structural constituent of muscle  structural constituent of muscle  vinculin binding  vinculin binding  intermediate filament binding  intermediate filament binding  fast-twitch skeletal muscle fiber contraction  sarcolemma  costamere  costamere  intermediate filament cytoskeleton organization  intermediate filament cytoskeleton  neurofilament cytoskeleton  neurofilament cytoskeleton  
Ontology : EGO-EBIstructural constituent of cytoskeleton  structural constituent of cytoskeleton  protein binding  intermediate filament  intermediate filament  intermediate filament  adherens junction  structural constituent of muscle  structural constituent of muscle  vinculin binding  vinculin binding  intermediate filament binding  intermediate filament binding  fast-twitch skeletal muscle fiber contraction  sarcolemma  costamere  costamere  intermediate filament cytoskeleton organization  intermediate filament cytoskeleton  neurofilament cytoskeleton  neurofilament cytoskeleton  
NDEx NetworkSYNM
Atlas of Cancer Signalling NetworkSYNM
Wikipedia pathwaysSYNM
Orthology - Evolution
OrthoDB23336
GeneTree (enSembl)ENSG00000182253
Phylogenetic Trees/Animal Genes : TreeFamSYNM
HOGENOMO15061
Homologs : HomoloGeneSYNM
Homology/Alignments : Family Browser (UCSC)SYNM
Gene fusions - Rearrangements
Fusion : QuiverSYNM
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYNM [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYNM
dbVarSYNM
ClinVarSYNM
MonarchSYNM
1000_GenomesSYNM 
Exome Variant ServerSYNM
GNOMAD BrowserENSG00000182253
Varsome BrowserSYNM
Genetic variants : HAPMAP23336
Genomic Variants (DGV)SYNM [DGVbeta]
DECIPHERSYNM [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSYNM 
Mutations
ICGC Data PortalSYNM 
TCGA Data PortalSYNM 
Broad Tumor PortalSYNM
OASIS PortalSYNM [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSYNM  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSYNM
Mutations and Diseases : HGMDSYNM
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 SYNM
DgiDB (Drug Gene Interaction Database)SYNM
DoCM (Curated mutations)SYNM (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SYNM (select a term)
intoGenSYNM
Cancer3DSYNM(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606087   
Orphanet
DisGeNETSYNM
MedgenSYNM
Genetic Testing Registry SYNM
NextProtO15061 [Medical]
TSGene23336
GENETestsSYNM
Target ValidationSYNM
Huge Navigator SYNM [HugePedia]
snp3D : Map Gene to Disease23336
BioCentury BCIQSYNM
ClinGenSYNM
Clinical trials, drugs, therapy
Protein Interactions : CTD23336
Pharm GKB GenePA164726408
Clinical trialSYNM
Miscellaneous
canSAR (ICR)SYNM (select the gene name)
HarmonizomeSYNM
DataMed IndexSYNM
Probes
Litterature
PubMed41 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSYNM
EVEXSYNM
GoPubMedSYNM
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 14 14:35:07 CEST 2020

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