Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SYCP2 (synaptonemal complex protein 2)

Identity

Alias (NCBI)SCP-2
SCP2
SPGF1
HGNC (Hugo) SYCP2
HGNC Alias symbSCP2
LocusID (NCBI) 10388
Atlas_Id 55846
Location 20q13.33  [Link to chromosome band 20q13]
Location_base_pair Starts at 59863572 and ends at 59933637 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)
ADNP (20q13.13) / SYCP2 (20q13.33)DENND4A (15q22.31) / SYCP2 (20q13.33)ERC1 (12p13.33) / SYCP2 (20q13.33)
SYCP2 (20q13.33) / ZMYND8 (20q13.12)

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) [ 2 ]
  ADNP/SYCP2 (20q13)
SYCP2/ZMYND8 (20q13)


External links

Nomenclature
HGNC (Hugo)SYCP2   11490
Cards
Entrez_Gene (NCBI)SYCP2  10388  synaptonemal complex protein 2
AliasesSCP-2; SCP2; SPGF1
GeneCards (Weizmann)SYCP2
Ensembl hg19 (Hinxton)ENSG00000196074 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000196074 [Gene_View]  ENSG00000196074 [Sequence]  chr20:59863572-59933637 [Contig_View]  SYCP2 [Vega]
ICGC DataPortalENSG00000196074
TCGA cBioPortalSYCP2
AceView (NCBI)SYCP2
Genatlas (Paris)SYCP2
WikiGenes10388
SOURCE (Princeton)SYCP2
Genetics Home Reference (NIH)SYCP2
Genomic and cartography
GoldenPath hg38 (UCSC)SYCP2  -     chr20:59863572-59933637 -  20q13.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SYCP2  -     20q13.33   [Description]    (hg19-Feb_2009)
GoldenPathSYCP2 - 20q13.33 [CytoView hg19]  SYCP2 - 20q13.33 [CytoView hg38]
ImmunoBaseENSG00000196074
genome Data Viewer NCBISYCP2 [Mapview hg19]  
OMIM258150   604105   
Gene and transcription
Genbank (Entrez)AK308889 AL080226 BC040566 BC132864 BC132870
RefSeq transcript (Entrez)NM_014258
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SYCP2
Alternative Splicing GalleryENSG00000196074
Gene ExpressionSYCP2 [ NCBI-GEO ]   SYCP2 [ EBI - ARRAY_EXPRESS ]   SYCP2 [ SEEK ]   SYCP2 [ MEM ]
Gene Expression Viewer (FireBrowse)SYCP2 [ Firebrowse - Broad ]
GenevisibleExpression of SYCP2 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10388
GTEX Portal (Tissue expression)SYCP2
Human Protein AtlasENSG00000196074-SYCP2 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BX26   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BX26  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BX26
Splice isoforms : SwissVarQ9BX26
PhosPhoSitePlusQ9BX26
Domains : Interpro (EBI)SYCP1/2    SYCP2    SYCP2_ARLD    SYCP2_SLD   
Domain families : Pfam (Sanger)SYCP2_ARLD (PF18581)    SYCP2_SLD (PF18584)   
Domain families : Pfam (NCBI)pfam18581    pfam18584   
Conserved Domain (NCBI)SYCP2
DMDM Disease mutations10388
Blocks (Seattle)SYCP2
SuperfamilyQ9BX26
Human Protein Atlas [tissue]ENSG00000196074-SYCP2 [tissue]
Peptide AtlasQ9BX26
HPRD06822
IPIIPI00306718   IPI00793345   IPI00789850   IPI00792691   
Protein Interaction databases
DIP (DOE-UCLA)Q9BX26
IntAct (EBI)Q9BX26
FunCoupENSG00000196074
BioGRIDSYCP2
STRING (EMBL)SYCP2
ZODIACSYCP2
Ontologies - Pathways
QuickGOQ9BX26
Ontology : AmiGOmitotic G1 phase  condensed nuclear chromosome, centromeric region  synaptonemal complex  lateral element  lateral element  DNA binding  nucleus  synaptonemal complex assembly  male meiotic nuclear division  female meiotic nuclear division  fertilization  negative regulation of apoptotic process  male genitalia morphogenesis  cell division  meiotic nuclear division  
Ontology : EGO-EBImitotic G1 phase  condensed nuclear chromosome, centromeric region  synaptonemal complex  lateral element  lateral element  DNA binding  nucleus  synaptonemal complex assembly  male meiotic nuclear division  female meiotic nuclear division  fertilization  negative regulation of apoptotic process  male genitalia morphogenesis  cell division  meiotic nuclear division  
NDEx NetworkSYCP2
Atlas of Cancer Signalling NetworkSYCP2
Wikipedia pathwaysSYCP2
Orthology - Evolution
OrthoDB10388
GeneTree (enSembl)ENSG00000196074
Phylogenetic Trees/Animal Genes : TreeFamSYCP2
HOGENOMQ9BX26
Homologs : HomoloGeneSYCP2
Homology/Alignments : Family Browser (UCSC)SYCP2
Gene fusions - Rearrangements
Fusion : QuiverSYCP2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYCP2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYCP2
dbVarSYCP2
ClinVarSYCP2
1000_GenomesSYCP2 
Exome Variant ServerSYCP2
GNOMAD BrowserENSG00000196074
Varsome BrowserSYCP2
Genetic variants : HAPMAP10388
Genomic Variants (DGV)SYCP2 [DGVbeta]
DECIPHERSYCP2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSYCP2 
Mutations
ICGC Data PortalSYCP2 
TCGA Data PortalSYCP2 
Broad Tumor PortalSYCP2
OASIS PortalSYCP2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSYCP2  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSYCP2
Mutations and Diseases : HGMDSYCP2
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 SYCP2
DgiDB (Drug Gene Interaction Database)SYCP2
DoCM (Curated mutations)SYCP2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SYCP2 (select a term)
intoGenSYCP2
Cancer3DSYCP2(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM258150    604105   
Orphanet
DisGeNETSYCP2
MedgenSYCP2
Genetic Testing Registry SYCP2
NextProtQ9BX26 [Medical]
TSGene10388
GENETestsSYCP2
Target ValidationSYCP2
Huge Navigator SYCP2 [HugePedia]
snp3D : Map Gene to Disease10388
BioCentury BCIQSYCP2
ClinGenSYCP2
Clinical trials, drugs, therapy
Protein Interactions : CTD10388
Pharm GKB GenePA36272
Clinical trialSYCP2
Miscellaneous
canSAR (ICR)SYCP2 (select the gene name)
HarmonizomeSYCP2
DataMed IndexSYCP2
Probes
Litterature
PubMed10 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSYCP2
EVEXSYCP2
GoPubMedSYCP2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Jul 16 15:38:22 CEST 2020

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