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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SYCE1 Gene

protein-coding   GIFtS: 49
GCID: GC10M135367

synaptonemal complex central element protein 1

(Previous name: chromosome 10 open reading frame 94 )
(Previous symbol: C10orf94)
 Explore 1 disease affiliated with
SYCE1 via our new
 Human Malady Compendium 
Biological research products
for SYCE1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Synaptonemal Complex Central Element Protein 11 2
C10orf941 2 3
CT761 2 3
Cancer/Testis Antigen 762 3
BA108K14.61
Chromosome 10 Open Reading Frame 941

External Ids:    HGNC: 288521   Entrez Gene: 934262   Ensembl: ENSG000001717727   OMIM: 6114865   UniProtKB: Q8N0S23   

Export aliases for SYCE1 gene to outside databases

Previous GC identifers: GC10M135257 GC10M135217 GC10M128909


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: SYCE1_HUMAN, Q8N0S2
Function: Major component of the transverse central element of synaptonemal complexes (SCS), formed between homologous
chromosomes during meiotic prophase. Requires SYCP1 in order to be incorporated into the central element. May have a
role in the synaptonemal complex assembly, stabilization and recombination (By similarity)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000010.10  NC_018921.1  NT_008818.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SYCE1 gene promoter:
         GR   STAT3   GR-alpha   MIF-1   Nkx5-1   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): SYCE1 promoter sequence
   Search SABiosciences Chromatin IP Primers for SYCE1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SYCE1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10q26.3   Ensembl cytogenetic band:  10q26.3   HGNC cytogenetic band: 10q26.3

SYCE1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SYCE1 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M135367:  view genomic region     (about GC identifiers)

Start:
135,367,404 bp from pter      End:
135,382,876 bp from pter
Size:
15,473 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: SYCE1_HUMAN, Q8N0S2 (See protein sequence)
Recommended Name: Synaptonemal complex central element protein 1  
Size: 351 amino acids; 39699 Da
Subunit: Homodimer. Found in a complex with SYCP1 and SYCE2. Interacts with SYCP1, SYCE2 and SYCE3 (By similarity)
Subcellular location: Nucleus. Chromosome. Note=Associates with chromatin. In prophase I stage of meiosis, localizes in
the transverse central elements of the central region between lateral elements of the synaptonemal complexes. Found
only where the chromosome cores are synapsed. Colocalizes with SYCE2 in the central elements (By similarity)
Sequence caution: Sequence=AAH34821.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: B2RC80 Q9BWU3 Q9BWU4
Alternative splicing: 3 isoforms:  Q8N0S2-1   Q8N0S2-2   Q8N0S2-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SYCE1: NX_Q8N0S2

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8N0S2

  • SYCE1 Protein expression data from MOPED and PaxDb:    About this image 
    SYCE1 Protein Expression
    REFSEQ proteins (3 alternative transcripts): 
    NP_001137235.1  NP_001137236.1  NP_570140.1  

    ENSEMBL proteins: 
     ENSP00000357503   ENSP00000303978   ENSP00000411779   ENSP00000341282  
    Reactome Protein details: Q8N0S2
    Human Recombinant Protein Products for SYCE1: 
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    Uscn Proteins for SYCE1

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000795synaptonemal complex ----
    GO:0000801central element ISS15944401

    SYCE1 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    SYCE1 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR026676 SYCE1

    Graphical View of Domain Structure for InterPro Entry Q8N0S2

    ProtoNet protein and cluster: Q8N0S2

    UniProtKB/Swiss-Prot: SYCE1_HUMAN, Q8N0S2
    Similarity: Belongs to the SYCE family


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SYCE1_HUMAN, Q8N0S2
    Function: Major component of the transverse central element of synaptonemal complexes (SCS), formed between homologous
    chromosomes during meiotic prophase. Requires SYCP1 in order to be incorporated into the central element. May have a
    role in the synaptonemal complex assembly, stabilization and recombination (By similarity)

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    SYCE1 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SYCE1:
     Decreased Wnt reporter activit 

         4 MGI mutant phenotypes (inferred from 1 allele(MGI details for Syce1):
     cellular  endocrine/exocrine gland  homeostasis/metabolism  reproductive system 

    SYCE1 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for SYCE1 

    miRNA
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Meiotic Synapsis
    Meiotic Synapsis1.00
    Chromosome Maintenance0.56
    Meiosis0.70
    2Synapsis
    Synapsis1.00
    3Cell Cycle
    Cell Cycle1.00

    Pathway sources
    See GeneCards unified pathways
    Show all pathways


    5        Reactome Pathways for SYCE1
        Synapsis
    Meiotic Synapsis
    Cell Cycle
    Meiosis
    Chromosome Maintenance



    SYCE1 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SYCE1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 23)

    5/23 Interacting proteins for SYCE1 (ENSP000003412824) via UniProtKB, MINT, STRING, and/or I2D (see all 23)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HSPA2ENSP000002472074STRING: ENSP00000247207
    RAD21ENSP000002973384STRING: ENSP00000297338
    SMC1AENSP000003234214STRING: ENSP00000323421
    SMC1BENSP000003500364STRING: ENSP00000350036
    SMC3ENSP000003547204STRING: ENSP00000354720
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007128meiotic prophase I IC15944401
    GO:0007130synaptonemal complex assembly IEA--
    GO:0051301cell division IEA--

    SYCE1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SYCE1
    Search CenterWatch for drugs/clinical trials and news about SYCE1 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, Sirion Biotech, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SYCE1 gene (4 alternative transcripts): 
    NM_201564.1  NM_001143763.1  NM_001143764.1  NM_130784.2  

    Unigene Cluster for SYCE1:

    Synaptonemal complex central element protein 1
    Hs.553795  [show with all ESTs]
    Unigene Representative Sequence: NM_001143763
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000479535(uc001lnm.2) ENST00000368517 ENST00000460441 ENST00000482127
    ENST00000303903(uc009ybn.2) ENST00000432597(uc001lnn.2) ENST00000343131(uc001lno.2)


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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SYCE1
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SYCE1

    Additional cDNA sequence: 

    AK314978.1 AY027807.1 BC034821.1 

    8 DOTS entries:

    DT.92068897  DT.92068896  DT.91967364  DT.121278807  DT.121278826  DT.92449335  DT.100001572  DT.101965416 

    24/30 AceView cDNA sequences (see all 30):

    CR609441 BE550877 BU568165 BU570277 NM_201564 BU567348 AY027807 BU570751 
    BC034821 BG724054 AA718937 BX279808 BU154554 BG721336 BQ435471 BI825690 
    AY027808 NM_130784 BX364374 BX364375 BF968247 AA682767 BP371402 BU854513 

    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for SYCE1 (see all 7)    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4a · 4b · 4c · 4d ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16
    SP1:        -     -     -     -     -                 -     -                                                                 -         
    SP2:                                -                 -     -                                                                           
    SP3:                                                                                                                          -         
    SP4:                                -                 -     -                                                                           
    SP5:                                                                                                                                    


    ECgene alternative splicing isoforms for SYCE1

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SYCE1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ACTTTTAAAT
    SYCE1 Expression
    About this image
    See SYCE1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SYCE1

    SOURCE GeneReport for Unigene cluster: Hs.553795
        SABiosciences Custom PCR Arrays for SYCE1

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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for SYCE1 gene from 3/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Syce11 , 5 synaptonemal complex central element protein 11, 5 76.83(n)1
    66.04(a)1
      7 (85.96 cM)5
    740751  NM_001143765.11  NP_001137237.11 
     1407772295 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    35(a)
    1 → many
    2(69124124-69140136)
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5659981 synaptonemal complex central element protein 1-like 49.41(n)
    35.29(a)
      565998  XM_689263.4  XP_694355.3 


    ENSEMBL Gene Tree for SYCE1 (if available)
    TreeFam Gene Tree for SYCE1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SYCE1 gene
    SYCE1L2  
    1 SIMAP similar gene for SYCE1 using alignment to 1 protein entry:     SYCE1_HUMAN:
    SYCE1L

    SYCE1 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/505 NCBI SNPs in SYCE1 are shown (see all 505    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1901464981,2
    --135366912(+) TAGAGA/GACCAG 2 -- ds50010--------
    rs1162411621,2
    F--135366950(+) ACACAC/TACAGC 2 -- ds50011Minor allele frequency- T:0.08WA 118
    rs1509984821,2
    --135366978(+) AAGAAC/TATCCT 2 -- ds50010--------
    rs124129901,2
    H--135366997(+) CCTGCA/GGAGAG 2 -- ds50014Minor allele frequency- G:0.00NS EA 420
    rs733870801,2
    C--135367022(+) TGTGCC/TAGCCT 2 -- ds50012Minor allele frequency- T:0.06WA 120
    rs50292711,2
    C,F,A,H--135367059(+) TTGGCT/CGAGAT 2 -- ds500113Minor allele frequency- C:0.19NS EA NA WA 790
    rs1145677401,2
    F--135367161(+) TGGGTC/ACTGTG 2 -- ds50011Minor allele frequency- A:0.03WA 118
    rs1823770281,2
    --135367260(+) TGTAGA/CTTGAT 2 -- ds50010--------
    rs771950761,2
    F--135367265(+) ATTGAT/CTCACA 2 -- ds50011Minor allele frequency- C:0.02EA 120
    rs747531901,2
    C--135367316(+) TAGAAC/ATTCCA 2 -- ds50011Minor allele frequency- A:0.50NA 2

    HapMap Linkage Disequilibrium report for SYCE1 (135367404 - 135382876 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 44 variations for SYCE1
         15/44 CNVs (see all 44): 2896 9170 6852 65825 48476 8673 8672 53803 48474 53842 53981 8670 48483 65826 34537

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    SYCE1 for disorders           About GeneDecksing

    OMIM gene information: 611486    OMIM disorders: --

    1 disease for SYCE1:    About MalaCards
    premature ovarian failure

    Human Genome Epidemiology (HuGE) Navigator: SYCE1 (1 document)

    Export disorders for SYCE1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SYCE1 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SYCE1)
        Utopia: connect your pdf to the dynamic
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    1. Genomic analysis of human chromosome 10q and 4q telomeres suggests a common origin. (PubMed id 11829491)1, 2, 3 van Geel M.... Hewitt J.E. (2002)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    3. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (2004)
    4. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
    5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    6. Two novel proteins recruited by synaptonemal complex protein 1 (SYCP1) are at the centre of meiosis. (PubMed id 15944401)1 Costa Y....Cooke H.J. (2005)
    7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 93426 HGNC: 28852 AceView: C10orf94 Ensembl:ENSG00000171772 euGenes: HUgn93426
    ECgene: SYCE1 H-InvDB: SYCE1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SYCE1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SYCE1 gene:
    Search GeneIP for patents involving SYCE1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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