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SYCE3 Gene

protein-coding   GIFtS: 33
GCID: GC22M050990

Synaptonemal Complex Central Element Protein 3

(Previous name: chromosome 22 open reading frame 41)
(Previous symbol: C22orf41)
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Synaptonemal Complex Central Element Protein 31 2     THEG22 3
C22orf411 2 3     Chromosome 22 Open Reading Frame 411
Testis Highly Expressed Protein 21 2     THEG-23
Testis Highly Expressed Gene 2 Protein2 3     

External Ids:    HGNC: 352451   Entrez Gene: 6441862   Ensembl: ENSG000002174427   UniProtKB: A1L1903   

Export aliases for SYCE3 gene to outside databases


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SYCE3 Gene:
SYCE3 (synaptonemal complex central element protein 3) is a protein-coding gene.

UniProtKB/Swiss-Prot: SYCE3_HUMAN, A1L190
Function: Major component of the transverse central element of synaptonemal complexes (SCS), formed between
homologous chromosomes during meiotic prophase. Required for chromosome loading of the central element-specific
SCS proteins, and for initiating synapsis between homologous chromosomes. Chromosome loading appears to require
SYCP1. Required for fertility (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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000022.10  NC_018933.2  NT_011526.8  
Regulatory elements:
   Search for regulatory transcription factor binding sites for SYCE3
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SYCE3


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

Entrez Gene cytogenetic band: 22q13.33   Ensembl cytogenetic band:  22q13.33   HGNC cytogenetic band: 22q13.33

SYCE3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SYCE3 gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22M050990:  view genomic region     (about GC identifiers)

Start:
50,989,541 bp from pter      End:
51,001,334 bp from pter
Size:
11,794 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
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UniProtKB/Swiss-Prot: SYCE3_HUMAN, A1L190 (See protein sequence)
Recommended Name: Synaptonemal complex central element protein 3  
Size: 88 amino acids; 10601 Da
Subunit: Interacts with SYCE1 and SYCE2 (By similarity)

Explore the universe of human proteins at neXtProt for SYCE3: NX_A1L190

Explore proteomics data for SYCE3 at MOPED


See SYCE3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001116697.1  
ENSEMBL proteins: 
 ENSP00000385480   ENSP00000385122  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro protein domain:
 IPR028145 Synaptonemal_3

Graphical View of Domain Structure for InterPro Entry A1L190

ProtoNet protein and cluster: A1L190


Find genes that share domains with SYCE3           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: SYCE3_HUMAN, A1L190
Function: Major component of the transverse central element of synaptonemal complexes (SCS), formed between
homologous chromosomes during meiotic prophase. Required for chromosome loading of the central element-specific
SCS proteins, and for initiating synapsis between homologous chromosomes. Chromosome loading appears to require
SYCP1. Required for fertility (By similarity)

     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding ----
     
Find genes that share ontologies with SYCE3           About GenesLikeMe


Phenotypes:
     2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Syce3):
 endocrine/exocrine gland  reproductive system 

Find genes that share phenotypes with SYCE3           About GenesLikeMe

Animal Models:
     MGI mouse knock-out Syce3tm1Rben for SYCE3

   genOway: Develop your customized and physiologically relevant rodent model for SYCE3

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
SYCE3_HUMAN, A1L190: Nucleus (By similarity). Chromosome (By similarity). Note=Colocalizes with SYCE1 in the
central elements (By similarity)

Gene Ontology (GO): 3 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0000801central element ISS--
GO:0005634nucleus ISS--
GO:0005694chromosome ISS--

Find genes that share ontologies with SYCE3           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SYCE3
Interactions:

    Search GeneGlobe Interaction Network for SYCE3

STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

2 Interacting proteins for SYCE3 (ENSP000003851224) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
SYCE1ENSP000003412824STRING: ENSP00000341282
SYCE2ENSP000002936954STRING: ENSP00000293695
About this table

Gene Ontology (GO): Selected biological process terms (see all 6):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006915apoptotic process ----
GO:0007130synaptonemal complex assembly ISS--
GO:0007131reciprocal meiotic recombination ISS--
GO:0007283spermatogenesis ISS--
GO:0043065positive regulation of apoptotic process IEA--

Find genes that share ontologies with SYCE3           About GenesLikeMe



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Tocris compounds for SYCE3



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for SYCE3 gene: 
NM_001123225.1  

Unigene Cluster for SYCE3:

Synaptonemal complex central element protein 3
Hs.535660  [show with all ESTs]
Unigene Representative Sequence: HY226834
2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000406915(uc003bmj.4 uc010hbe.3) ENST00000402753
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Additional mRNA sequence: 

BC127859.1 BC127860.1 EU082028.1 

2 DOTS entries:

DT.408460  DT.120664574 

GeneLoc Exon Structure


(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SYCE3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AATAGCTGTA
SYCE3 Expression
About this image


SYCE3 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 2) fully expand
 
 Epiblast (Early Embryonic Tissues)
         Epiblast-like cells
 
 Testis (Reproductive System)
SYCE3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SYCE3 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.535660
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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)
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This gene was present in the common ancestor of chordates.

Orthologs for SYCE3 gene from Selected species (see all 9)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Syce31 , 5 synaptonemal complex central element protein 31, 5 86.97(n)1
90.8(a)1
  15 (44.87 cM)5
754591  NM_001162880.11  NP_001156352.11 
 893901745 
chicken
(Gallus gallus)
Aves SYCE31 synaptonemal complex central element protein 3 73.33(n)
76.47(a)
  769096  NM_001278128.1  NP_001265057.1 
lizard
(Anolis carolinensis)
Reptilia SYCE36
synaptonemal complex central element protein 3
72(a)
1 ↔ 1
4(138998475-139009888)
tropical clawed frog
(Xenopus tropicalis)
Amphibia syce31 synaptonemal complex central element protein 3 66.27(n)
63.1(a)
  100496547  XM_002939528.1  XP_002939574.1 
zebrafish
(Danio rerio)
Actinopterygii SYCE36
synaptonemal complex central element protein 3
31(a)
1 ↔ 1
14(35642420-35643512) ENSDARG00000092889


ENSEMBL Gene Tree for SYCE3 (if available)
TreeFam Gene Tree for SYCE3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SYCE3 (see all 313)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 22 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1488326431,2
--50990018(+) CTACAA/GACATC 1 -- int10--------
rs113307411,2
C--50990071(+) ATACAC/-CAGAC 1 -- int11Minor allele frequency- -:0.50CSA 2
rs114279651,2
C--50990082(+) TGATG-/TTAAAA 1 -- int10--------
rs604149101,2
C,F--50990086(+) TGTAAA/GAAACT 1 -- int11Minor allele frequency- G:0.21WA 118
rs1862498061,2
--50990125(+) AGAATC/TAGAGC 1 -- int10--------
rs1900810051,2
--50990178(+) TGCAGA/GTGACC 1 -- int10--------
rs738912801,2
C,F--50990216(+) ACACTC/TAGGTA 1 -- int12Minor allele frequency- T:0.16WA 120
rs65201481,2
C,F,A,H--50990323(+) GCTTTC/TGTTGA 1 -- int112Minor allele frequency- T:0.12NA NS EA WA CSA 666
rs1434265811,2
--50990424(+) CAACTC/TGAAGG 1 -- int10--------
rs1830142481,2
--50990468(+) TTCTTG/TTGTGA 1 -- int10--------

HapMap Linkage Disequilibrium report for SYCE3 (50989541 - 51001334 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for SYCE3: --
Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing SYCE3
DNA2.0 Custom Variant and Variant Library Synthesis for SYCE3

(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.)
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  --

(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)
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PubMed articles for SYCE3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with SYCE3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. A novel mouse synaptonemal complex protein is essential for loading of central element proteins, recombination, and fertility. (PubMed id 21637789)1, 3 Schramm S....Benavente R. (PLoS Genet. 2011)
  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. (Genome Res. 2004)
  3. [Cloning and expression of a novel mouse testis gene TSEG-2]. (PubMed id 19323366)1 Wang Z.Y....Jiang G.S. (Zhonghua Nan Ke Xue 2009)
  4. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  5. (PubMed id )2 

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 644186 HGNC: 35245 Ensembl:ENSG00000217442 euGenes: HUgn644186 ECgene: SYCE3
H-InvDB: SYCE3

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for SYCE3 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SYCE3 gene:
Search GeneIP for patents involving SYCE3

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



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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 CLIAs for SYCE3



 Browse ESI BIO Cell Lines and PureStem Progenitors for SYCE3
 Gene Synthesis
 Protein Engineering
 Variant Library Synthesis
 Codon Optimization
 Protein Production and Purification
 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYCE3
 Browse SwitchGear 3'UTR luciferase reporter plasmids for SYCE3
 Browse SwitchGear Promoter luciferase reporter plasmids for SYCE3
 Search ThermoFisher Antibodies for SYCE3
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SYCE3
 Browse compounds at ApexBio
 Search Addgene for plasmids for SYCE3
  Search eBioscience for proteins for SYCE3
  Search eBioscience for elisas for SYCE3
  eBioscience FlowRNA Probe Sets
 genOway: Develop your customized and physiologically relevant rodent model for SYCE3
  Search antibodies-online for antibodies for SYCE3
 antibodies-online kits for SYCE3
  Search antibodies-online for peptides for SYCE3
 antibodies-online proteins for SYCE3 (3 products)
       
GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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