Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   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

SYNE1 (spectrin repeat containing, nuclear envelope 1)

Identity

Other names8B
ARCA1
C6orf98
CPG2
EDMD4
MYNE1
Nesp1
SCAR8
dJ45H2.2
HGNC (Hugo) SYNE1
LocusID (NCBI) 23345
Atlas_Id 50407
Location 6q25.1
Location_base_pair Starts at 152442819 and ends at 152957986 bp from pter ( according to hg19-Feb_2009)

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)SYNE1   17089
Cards
Entrez_Gene (NCBI)SYNE1  23345  spectrin repeat containing, nuclear envelope 1
GeneCards (Weizmann)SYNE1
Ensembl hg19 (Hinxton)ENSG00000131018 [Gene_View]  chr6:152442819-152957986 [Contig_View]  SYNE1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000131018 [Gene_View]  chr6:152442819-152957986 [Contig_View]  SYNE1 [Vega]
ICGC DataPortalENSG00000131018
TCGA cBioPortalSYNE1
AceView (NCBI)SYNE1
Genatlas (Paris)SYNE1
WikiGenes23345
SOURCE (Princeton)SYNE1
Genomic and cartography
GoldenPath hg19 (UCSC)SYNE1  -     chr6:152442819-152957986 -  6q25.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SYNE1  -     6q25.1   [Description]    (hg38-Dec_2013)
EnsemblSYNE1 - 6q25.1 [CytoView hg19]  SYNE1 - 6q25.1 [CytoView hg38]
Mapping of homologs : NCBISYNE1 [Mapview hg19]  SYNE1 [Mapview hg38]
OMIM608441   610743   612998   
Gene and transcription
Genbank (Entrez)AB018339 AB033088 AB051543 AF043290 AF444779
RefSeq transcript (Entrez)NM_001099267 NM_001134379 NM_015293 NM_033071 NM_133650 NM_182961
RefSeq genomic (Entrez)NC_000006 NC_018917 NG_012855 NT_025741 NW_004929328
Consensus coding sequences : CCDS (NCBI)SYNE1
Cluster EST : UnigeneHs.12967 [ NCBI ]
CGAP (NCI)Hs.12967
Alternative Splicing : Fast-db (Paris)GSHG0027005
Alternative Splicing GalleryENSG00000131018
Gene ExpressionSYNE1 [ NCBI-GEO ]     SYNE1 [ SEEK ]   SYNE1 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8NF91 (Uniprot)
NextProtQ8NF91  [Medical]  [Publications]
With graphics : InterProQ8NF91
Splice isoforms : SwissVarQ8NF91 (Swissvar)
Domaine pattern : Prosite (Expaxy)ACTININ_1 (PS00019)    ACTININ_2 (PS00020)    CH (PS50021)    KASH (PS51049)   
Domains : Interpro (EBI)Actinin_actin-bd_CS    CH-domain    KASH    Spectrin/alpha-actinin    Spectrin_repeat    SYNE1   
Related proteins : CluSTrQ8NF91
Domain families : Pfam (Sanger)CH (PF00307)    KASH (PF10541)    Spectrin (PF00435)   
Domain families : Pfam (NCBI)pfam00307    pfam10541    pfam00435   
Domain families : Smart (EMBL)CH (SM00033)  SPEC (SM00150)  
DMDM Disease mutations23345
Blocks (Seattle)Q8NF91
PDB (SRS)4DXR   
PDB (PDBSum)4DXR   
PDB (IMB)4DXR   
PDB (RSDB)4DXR   
Human Protein AtlasENSG00000131018
Peptide AtlasQ8NF91
HPRD09762
IPIIPI00386444   IPI00943590   IPI00170463   IPI00247295   IPI00247296   IPI00396977   IPI00940636   IPI00247300   IPI00748856   IPI00647370   IPI01019087   IPI01015487   IPI00917644   IPI01014069   IPI01013675   IPI00642043   IPI01012299   IPI01012718   IPI01009568   
Protein Interaction databases
DIP (DOE-UCLA)Q8NF91
IntAct (EBI)Q8NF91
FunCoupENSG00000131018
BioGRIDSYNE1
IntegromeDBSYNE1
STRING (EMBL)SYNE1
Ontologies - Pathways
QuickGOQ8NF91
Ontology : AmiGOactin binding  protein binding  lamin binding  nucleus  nuclear envelope  nuclear outer membrane  nucleoplasm  cytoplasm  Golgi apparatus  cytoskeleton  nucleus organization  Golgi organization  integral component of membrane  sarcomere  nuclear membrane  LINC complex  establishment of nucleus localization  muscle cell differentiation  protein homodimerization activity  poly(A) RNA binding  postsynaptic membrane  actin filament binding  cytoskeletal anchoring at nuclear membrane  nuclear matrix anchoring at nuclear membrane  
Ontology : EGO-EBIactin binding  protein binding  lamin binding  nucleus  nuclear envelope  nuclear outer membrane  nucleoplasm  cytoplasm  Golgi apparatus  cytoskeleton  nucleus organization  Golgi organization  integral component of membrane  sarcomere  nuclear membrane  LINC complex  establishment of nucleus localization  muscle cell differentiation  protein homodimerization activity  poly(A) RNA binding  postsynaptic membrane  actin filament binding  cytoskeletal anchoring at nuclear membrane  nuclear matrix anchoring at nuclear membrane  
Protein Interaction DatabaseSYNE1
DoCM (Curated mutations)SYNE1
Wikipedia pathwaysSYNE1
Gene fusion - Rearrangements
Gene fusion: TCGAPLXDC2 SYNE1  ZBTB2 SYNE1  ARID1B SYNE1  ASCC3 SYNE1  SYNE1 RGS17  
SYNE1 CACNA1C  
Polymorphisms : SNP, variants
NCBI Variation ViewerSYNE1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYNE1
dbVarSYNE1
ClinVarSYNE1
1000_GenomesSYNE1 
Exome Variant ServerSYNE1
SNP (GeneSNP Utah)SYNE1
SNP : HGBaseSYNE1
Genetic variants : HAPMAPSYNE1
Genomic Variants (DGV)SYNE1 [DGVbeta]
Mutations
ICGC Data PortalSYNE1 
TCGA Data PortalSYNE1 
Tumor PortalSYNE1
Somatic Mutations in Cancer : COSMICSYNE1 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)Leiden Muscular Dystrophy pages
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)6:152442819-152957986
CONAN: Copy Number AnalysisSYNE1 
Mutations and Diseases : HGMDSYNE1
OMIM608441    610743    612998   
MedgenSYNE1
NextProtQ8NF91 [Medical]
GENETestsSYNE1
Disease Genetic AssociationSYNE1
Huge Navigator SYNE1 [HugePedia]  SYNE1 [HugeCancerGEM]
snp3D : Map Gene to Disease23345
DGIdb (Drug Gene Interaction db)SYNE1
BioCentury BCIQSYNE1
General knowledge
Homologs : HomoloGeneSYNE1
Homology/Alignments : Family Browser (UCSC)SYNE1
Phylogenetic Trees/Animal Genes : TreeFamSYNE1
Chemical/Protein Interactions : CTD23345
Chemical/Pharm GKB GenePA134975331
Clinical trialSYNE1
Cancer Resource (Charite)ENSG00000131018
Other databases
Probes
Litterature
PubMed70 Pubmed reference(s) in Entrez
CoreMineSYNE1
GoPubMedSYNE1
iHOPSYNE1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated02-2015Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Jun 27 12:22:25 CEST 2015

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.