The protein encoded by this gene is part of the synaptonemal complex formed between homologous chromosomes during meiotic prophase. The encoded protein associates with SYCP1 and SYCE1 and is found only where chromosome cores are synapsed. [provided by RefSeq, Dec 2012] See more...

Aliases for SYCE2 Gene

Aliases for SYCE2 Gene

  • Synaptonemal Complex Central Element Protein 2 2 3 4 5
  • CESC1 2 3 4
  • Central Element Synaptonemal Complex Protein 1 4
  • Central Element Synaptonemal Complex 1 2
  • SYCE2 5

External Ids for SYCE2 Gene

Previous GeneCards Identifiers for SYCE2 Gene

  • GC19M012872
  • GC19U900619
  • GC19M013010
  • GC19M012581

Summaries for SYCE2 Gene

Entrez Gene Summary for SYCE2 Gene

  • The protein encoded by this gene is part of the synaptonemal complex formed between homologous chromosomes during meiotic prophase. The encoded protein associates with SYCP1 and SYCE1 and is found only where chromosome cores are synapsed. [provided by RefSeq, Dec 2012]

GeneCards Summary for SYCE2 Gene

SYCE2 (Synaptonemal Complex Central Element Protein 2) is a Protein Coding gene. Among its related pathways are Meiosis and Cell Cycle, Mitotic.

UniProtKB/Swiss-Prot Summary for SYCE2 Gene

  • 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).

Additional gene information for SYCE2 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SYCE2 Gene

Genomics for SYCE2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SYCE2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J012918 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 600.7 -0.2 -196 2.2 RNF2 SP1 CREB1 ZNF629 RFX1 ZNF692 POLR2A BACH1 TARDBP JUND MIR5695 SYCE2 CCDC130 ZNF136 TRMT1 ZNF44 ZNF20 ZNF763 ZNF564 ZNF700
GH19J013011 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 13.7 -100.5 -100521 17.2 RNF2 HNRNPL GATAD2A ZBTB33 TEAD4 PRDM10 ZNF629 TFE3 ZNF512 SOX13 NFIX CCDC130 TRMT1 ZNF44 ZNF136 ZNF564 ZNF709 ZNF791 WDR83OS MRI1
GH19J012983 Enhancer 1.5 FANTOM5 ENCODE dbSUPER 13.8 -65.1 -65128 3.2 ARHGAP35 HNRNPL CREB1 GATAD2A CTCF TEAD4 TFE3 ZNF512 NFKBIZ ZNF692 ZNF136 ZNF625 ZNF442 ZNF844 CCDC130 ZNF709 ZNF788P ZNF564 ZNF799 ENSG00000242615
GH19J013042 Enhancer 1.1 FANTOM5 ENCODE dbSUPER 11 -124.3 -124299 3 GATAD2A ZNF692 ZIC2 PATZ1 ZNF600 ZNF561 SCRT2 CEBPB ZBTB17 ZNF707 TRMT1 ZNF20 ZNF490 LYL1 NACC1 RNASEH2A NFIX DAND5 GADD45GIP1 DCAF15
GH19J013612 Enhancer 0.6 dbSUPER 13.6 -695.3 -695289 5 ZIC2 ZNF24 SCRT2 SCRT1 ZFHX2 POLR2A BHLHE40 GLIS1 ZNF664 SMARCA4 SYCE2 ZNF490 RFX1 CACNA1A piR-57133-306 IER2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SYCE2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SYCE2

Top Transcription factor binding sites by QIAGEN in the SYCE2 gene promoter:
  • AP-1
  • CUTL1
  • Nkx2-5

Genomic Locations for SYCE2 Gene

Genomic Locations for SYCE2 Gene
chr19:12,898,229-12,919,674
(GRCh38/hg38)
Size:
21,446 bases
Orientation:
Minus strand
chr19:13,009,600-13,030,090
(GRCh37/hg19)
Size:
20,491 bases
Orientation:
Minus strand

Genomic View for SYCE2 Gene

Genes around SYCE2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYCE2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYCE2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYCE2 Gene

Proteins for SYCE2 Gene

  • Protein details for SYCE2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6PIF2-SYCE2_HUMAN
    Recommended name:
    Synaptonemal complex central element protein 2
    Protein Accession:
    Q6PIF2
    Secondary Accessions:
    • B4DYD3

    Protein attributes for SYCE2 Gene

    Size:
    218 amino acids
    Molecular mass:
    24690 Da
    Quaternary structure:
    • Homodimer. Found in a complex with SYCP1 and SYCE1. Interacts with SYCP1, SYCE1 and SYCE3 (By similarity).

neXtProt entry for SYCE2 Gene

Post-translational modifications for SYCE2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYCE2 Gene

No data available for DME Specific Peptides for SYCE2 Gene

Domains & Families for SYCE2 Gene

Gene Families for SYCE2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SYCE2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SYCE2 Gene

GenScript: Design optimal peptide antigens:
  • Central element synaptonemal complex protein 1 (SYCE2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q6PIF2

UniProtKB/Swiss-Prot:

SYCE2_HUMAN :
  • Belongs to the SYCE family.
Family:
  • Belongs to the SYCE family.
genes like me logo Genes that share domains with SYCE2: view

Function for SYCE2 Gene

Molecular function for SYCE2 Gene

UniProtKB/Swiss-Prot 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).

Phenotypes From GWAS Catalog for SYCE2 Gene

genes like me logo Genes that share phenotypes with SYCE2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYCE2

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SYCE2 Gene

Localization for SYCE2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYCE2 Gene

Nucleus. 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 SYCE1 in the central elements (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SYCE2 gene
Compartment Confidence
nucleus 5
cytosol 2
extracellular 1
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SYCE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000801 central element ISS --
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
genes like me logo Genes that share ontologies with SYCE2: view

Pathways & Interactions for SYCE2 Gene

PathCards logo

SuperPathways for SYCE2 Gene

SuperPathway Contained pathways
1 Meiosis
.73
2 Cell Cycle, Mitotic
genes like me logo Genes that share pathways with SYCE2: view

Pathways by source for SYCE2 Gene

3 Reactome pathways for SYCE2 Gene

Gene Ontology (GO) - Biological Process for SYCE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007049 cell cycle IEA --
GO:0007130 synaptonemal complex assembly NAS 15944401
GO:0051301 cell division IEA --
GO:0051321 meiotic cell cycle IEA --
genes like me logo Genes that share ontologies with SYCE2: view

No data available for SIGNOR curated interactions for SYCE2 Gene

Drugs & Compounds for SYCE2 Gene

No Compound Related Data Available

Transcripts for SYCE2 Gene

mRNA/cDNA for SYCE2 Gene

1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYCE2

Alternative Splicing Database (ASD) splice patterns (SP) for SYCE2 Gene

No ASD Table

Relevant External Links for SYCE2 Gene

GeneLoc Exon Structure for
SYCE2

Expression for SYCE2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SYCE2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYCE2 Gene

This gene is overexpressed in Testis (x13.7).

Protein differential expression in normal tissues from HIPED for SYCE2 Gene

This gene is overexpressed in Testis (30.6), Ovary (18.9), and Fetal ovary (18.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SYCE2 Gene



Protein tissue co-expression partners for SYCE2 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SYCE2

SOURCE GeneReport for Unigene cluster for SYCE2 Gene:

Hs.655173
genes like me logo Genes that share expression patterns with SYCE2: view

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYCE2 Gene

Orthologs for SYCE2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SYCE2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SYCE2 30 31
  • 99.69 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SYCE2 30 31
  • 86.46 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SYCE2 30 31
  • 85.86 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Syce2 30 17 31
  • 78.34 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Syce2 30
  • 77.71 (n)
Oppossum
(Monodelphis domestica)
Mammalia SYCE2 31
  • 39 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SYCE2 31
  • 28 (a)
OneToOne
Chicken
(Gallus gallus)
Aves SYCE2 30
  • 64.24 (n)
Lizard
(Anolis carolinensis)
Reptilia SYCE2 31
  • 48 (a)
OneToOne
Species where no ortholog for SYCE2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for SYCE2 Gene

ENSEMBL:
Gene Tree for SYCE2 (if available)
TreeFam:
Gene Tree for SYCE2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SYCE2: view image

Paralogs for SYCE2 Gene

Pseudogenes.org Pseudogenes for SYCE2 Gene

genes like me logo Genes that share paralogs with SYCE2: view

No data available for Paralogs for SYCE2 Gene

Variants for SYCE2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SYCE2 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
660506 Pathogenic: Glutaric aciduria, type 1 12,899,522(-) C/A MISSENSE_VARIANT,NON_CODING_TRANSCRIPT_VARIANT,INTRON_VARIANT
731990 Likely Benign: Glutaric aciduria, type 1 12,899,511(-) G/T NON_CODING_TRANSCRIPT_VARIANT,SYNONYMOUS_VARIANT,INTRON_VARIANT
740894 Likely Benign: not provided 12,899,464(-) C/A INTRON_VARIANT
745562 Likely Benign: Glutaric aciduria, type 1 12,899,511(-) G/A NON_CODING_TRANSCRIPT_VARIANT,SYNONYMOUS_VARIANT,INTRON_VARIANT
799844 Likely Benign: Glutaric aciduria, type 1 12,899,484(-) C/T NON_CODING_TRANSCRIPT_VARIANT,SYNONYMOUS_VARIANT,INTRON_VARIANT

Additional dbSNP identifiers (rs#s) for SYCE2 Gene

Structural Variations from Database of Genomic Variants (DGV) for SYCE2 Gene

Variant ID Type Subtype PubMed ID
esv2668234 CNV deletion 23128226
esv3583254 CNV loss 25503493
esv3643715 CNV loss 21293372
esv3643716 CNV loss 21293372
nsv1160589 CNV duplication 26073780
nsv833754 CNV loss 17160897
nsv953977 CNV deletion 24416366

Variation tolerance for SYCE2 Gene

Residual Variation Intolerance Score: 69.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.48; 10.48% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYCE2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYCE2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYCE2 Gene

Disorders for SYCE2 Gene

Additional Disease Information for SYCE2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform

No disorders were found for SYCE2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYCE2 Gene

Publications for SYCE2 Gene

  1. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 41
  2. Two novel proteins recruited by synaptonemal complex protein 1 (SYCP1) are at the centre of meiosis. (PMID: 15944401) Costa Y … Cooke HJ (Journal of cell science 2005) 2 3
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  5. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 3 4

Products for SYCE2 Gene

Sources for SYCE2 Gene