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SYCP1 (synaptonemal complex protein 1)

Identity

Alias_symbol (synonym)HOM-TES-14
SCP1
CT8
Other aliasSCP-1
HGNC (Hugo) SYCP1
LocusID (NCBI) 6847
Atlas_Id 46452
Location 1p13.2  [Link to chromosome band 1p13]
Location_base_pair Starts at 114854803 and ends at 114995369 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
DYNC1LI2 (16q22.1) / SYCP1 (1p13.2)RGS22 (8q22.2) / SYCP1 (1p13.2)RGS22 8q22.2 / SYCP1 1p13.2

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) [ 1 ]
  Testis: Spermatocytic seminoma


External links

Nomenclature
HGNC (Hugo)SYCP1   11487
Cards
Entrez_Gene (NCBI)SYCP1  6847  synaptonemal complex protein 1
AliasesCT8; HOM-TES-14; SCP-1; SCP1
GeneCards (Weizmann)SYCP1
Ensembl hg19 (Hinxton)ENSG00000198765 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000198765 [Gene_View]  chr1:114854803-114995369 [Contig_View]  SYCP1 [Vega]
ICGC DataPortalENSG00000198765
TCGA cBioPortalSYCP1
AceView (NCBI)SYCP1
Genatlas (Paris)SYCP1
WikiGenes6847
SOURCE (Princeton)SYCP1
Genetics Home Reference (NIH)SYCP1
Genomic and cartography
GoldenPath hg38 (UCSC)SYCP1  -     chr1:114854803-114995369 +  1p13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SYCP1  -     1p13.2   [Description]    (hg19-Feb_2009)
EnsemblSYCP1 - 1p13.2 [CytoView hg19]  SYCP1 - 1p13.2 [CytoView hg38]
Mapping of homologs : NCBISYCP1 [Mapview hg19]  SYCP1 [Mapview hg38]
OMIM602162   
Gene and transcription
Genbank (Entrez)AA868393 AF273043 AK315268 BC026162 BC065190
RefSeq transcript (Entrez)NM_001282541 NM_001282542 NM_003176
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SYCP1
Cluster EST : UnigeneHs.112743 [ NCBI ]
CGAP (NCI)Hs.112743
Alternative Splicing GalleryENSG00000198765
Gene ExpressionSYCP1 [ NCBI-GEO ]   SYCP1 [ EBI - ARRAY_EXPRESS ]   SYCP1 [ SEEK ]   SYCP1 [ MEM ]
Gene Expression Viewer (FireBrowse)SYCP1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6847
GTEX Portal (Tissue expression)SYCP1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ15431   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ15431  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ15431
Splice isoforms : SwissVarQ15431
PhosPhoSitePlusQ15431
Domains : Interpro (EBI)SYCP1    SYCP1/2   
Domain families : Pfam (Sanger)SCP-1 (PF05483)   
Domain families : Pfam (NCBI)pfam05483   
Conserved Domain (NCBI)SYCP1
DMDM Disease mutations6847
Blocks (Seattle)SYCP1
PDB (SRS)4YTO   
PDB (PDBSum)4YTO   
PDB (IMB)4YTO   
PDB (RSDB)4YTO   
Structural Biology KnowledgeBase4YTO   
SCOP (Structural Classification of Proteins)4YTO   
CATH (Classification of proteins structures)4YTO   
SuperfamilyQ15431
Human Protein AtlasENSG00000198765
Peptide AtlasQ15431
HPRD03698
IPIIPI00216137   IPI00641577   
Protein Interaction databases
DIP (DOE-UCLA)Q15431
IntAct (EBI)Q15431
FunCoupENSG00000198765
BioGRIDSYCP1
STRING (EMBL)SYCP1
ZODIACSYCP1
Ontologies - Pathways
QuickGOQ15431
Ontology : AmiGOmeiotic DNA repair synthesis  chromosome, centromeric region  synaptonemal complex  central element  transverse filament  male germ cell nucleus  DNA binding  synapsis  synaptonemal complex assembly  reciprocal meiotic recombination  spermatogenesis  regulation of protein localization  sperm chromatin condensation  chiasma assembly  cell division  lateral element assembly  
Ontology : EGO-EBImeiotic DNA repair synthesis  chromosome, centromeric region  synaptonemal complex  central element  transverse filament  male germ cell nucleus  DNA binding  synapsis  synaptonemal complex assembly  reciprocal meiotic recombination  spermatogenesis  regulation of protein localization  sperm chromatin condensation  chiasma assembly  cell division  lateral element assembly  
NDEx NetworkSYCP1
Atlas of Cancer Signalling NetworkSYCP1
Wikipedia pathwaysSYCP1
Orthology - Evolution
OrthoDB6847
GeneTree (enSembl)ENSG00000198765
Phylogenetic Trees/Animal Genes : TreeFamSYCP1
HOVERGENQ15431
HOGENOMQ15431
Homologs : HomoloGeneSYCP1
Homology/Alignments : Family Browser (UCSC)SYCP1
Gene fusions - Rearrangements
Fusion : MitelmanRGS22/SYCP1 [8q22.2/1p13.2]  [t(1;8)(p13;q22)]  
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYCP1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYCP1
dbVarSYCP1
ClinVarSYCP1
1000_GenomesSYCP1 
Exome Variant ServerSYCP1
ExAC (Exome Aggregation Consortium)SYCP1 (select the gene name)
Genetic variants : HAPMAP6847
Genomic Variants (DGV)SYCP1 [DGVbeta]
DECIPHERSYCP1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSYCP1 
Mutations
ICGC Data PortalSYCP1 
TCGA Data PortalSYCP1 
Broad Tumor PortalSYCP1
OASIS PortalSYCP1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSYCP1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSYCP1
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 SYCP1
DgiDB (Drug Gene Interaction Database)SYCP1
DoCM (Curated mutations)SYCP1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SYCP1 (select a term)
intoGenSYCP1
Cancer3DSYCP1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM602162   
Orphanet
MedgenSYCP1
Genetic Testing Registry SYCP1
NextProtQ15431 [Medical]
TSGene6847
GENETestsSYCP1
Target ValidationSYCP1
Huge Navigator SYCP1 [HugePedia]
snp3D : Map Gene to Disease6847
BioCentury BCIQSYCP1
ClinGenSYCP1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6847
Chemical/Pharm GKB GenePA36269
Clinical trialSYCP1
Miscellaneous
canSAR (ICR)SYCP1 (select the gene name)
Probes
Litterature
PubMed15 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSYCP1
EVEXSYCP1
GoPubMedSYCP1
iHOPSYCP1
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 18 14:09:02 CEST 2017

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