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Aliases for SYCP1 Gene

Aliases for SYCP1 Gene

  • Synaptonemal Complex Protein 1 2 3 5
  • Cancer/Testis Antigen 8 2 3 4
  • SCP-1 3 4
  • SCP1 3 4
  • CT8 3 4
  • Testicular Tissue Protein Li 191 3
  • HOM-TES-14 3

External Ids for SYCP1 Gene

Previous GeneCards Identifiers for SYCP1 Gene

  • GC01P115810
  • GC01P114279
  • GC01P114497
  • GC01P114696
  • GC01P115109
  • GC01P115198
  • GC01P115397
  • GC01P113255

Summaries for SYCP1 Gene

GeneCards Summary for SYCP1 Gene

SYCP1 (Synaptonemal Complex Protein 1) is a Protein Coding gene. Diseases associated with SYCP1 include Male Infertility. Among its related pathways are Meiosis and Cell Cycle, Mitotic.

UniProtKB/Swiss-Prot for SYCP1 Gene

  • Major component of the transverse filaments of synaptonemal complexes (SCS), formed between homologous chromosomes during meiotic prophase. Required for normal assembly of the central element of the synaptonemal complexes. Required for normal centromere pairing during meiosis. Required for normal meiotic chromosome synapsis during oocyte and spermatocyte development and for normal male and female fertility.

Gene Wiki entry for SYCP1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYCP1 Gene

Genomics for SYCP1 Gene

Regulatory Elements for SYCP1 Gene

Enhancers for SYCP1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G114803 0.5 ENCODE 11.1 -51.2 -51202 0.2 PKNOX1 RFX1 NFYB SIKE1 SYCP1 NR1H5P
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYCP1 on UCSC Golden Path with GeneCards custom track

Genomic Location for SYCP1 Gene

Chromosome:
1
Start:
114,854,416 bp from pter
End:
114,995,370 bp from pter
Size:
140,955 bases
Orientation:
Plus strand

Genomic View for SYCP1 Gene

Genes around SYCP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYCP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYCP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYCP1 Gene

Proteins for SYCP1 Gene

  • Protein details for SYCP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15431-SYCP1_HUMAN
    Recommended name:
    Synaptonemal complex protein 1
    Protein Accession:
    Q15431
    Secondary Accessions:
    • O14963
    • Q5VXJ6

    Protein attributes for SYCP1 Gene

    Size:
    976 amino acids
    Molecular mass:
    114192 Da
    Quaternary structure:
    • Homodimer (PubMed:26323297). Component of synaptonemal complexes. Found in a complex with SYCE1 and SYCE2. Interacts with SYCE1 and SYCE2 (By similarity).

    Three dimensional structures from OCA and Proteopedia for SYCP1 Gene

neXtProt entry for SYCP1 Gene

Post-translational modifications for SYCP1 Gene

  • Ubiquitination at Lys295
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SYCP1 Gene

Domains & Families for SYCP1 Gene

Protein Domains for SYCP1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SYCP1 Gene

Graphical View of Domain Structure for InterPro Entry

Q15431

UniProtKB/Swiss-Prot:

SYCP1_HUMAN :
  • Consists of a predicted coiled coil region of 700 AA residues, flanked by N- and C-terminal globular domains. The C-terminal domain may have DNA-binding capacity.
Domain:
  • Consists of a predicted coiled coil region of 700 AA residues, flanked by N- and C-terminal globular domains. The C-terminal domain may have DNA-binding capacity.
genes like me logo Genes that share domains with SYCP1: view

No data available for Gene Families for SYCP1 Gene

Function for SYCP1 Gene

Molecular function for SYCP1 Gene

GENATLAS Biochemistry:
synaptonemal complex protein 1,axial element,homolog to mouse Scp1,DNA binding protein involved in the structural organization of meiotic prophase chromosomes,
UniProtKB/Swiss-Prot Function:
Major component of the transverse filaments of synaptonemal complexes (SCS), formed between homologous chromosomes during meiotic prophase. Required for normal assembly of the central element of the synaptonemal complexes. Required for normal centromere pairing during meiosis. Required for normal meiotic chromosome synapsis during oocyte and spermatocyte development and for normal male and female fertility.

Gene Ontology (GO) - Molecular Function for SYCP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding TAS,IEA --
genes like me logo Genes that share ontologies with SYCP1: view
genes like me logo Genes that share phenotypes with SYCP1: view

Animal Models for SYCP1 Gene

MGI Knock Outs for SYCP1:

Animal Model Products

CRISPR Products

miRNA for SYCP1 Gene

miRTarBase miRNAs that target SYCP1

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SYCP1 Gene

Localization for SYCP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYCP1 Gene

Nucleus. Chromosome. Chromosome, centromere. Note=In tripartite segments of synaptonemal complexes, between lateral elements in the nucleus. Its N-terminus is found towards the center of the synaptonemal complex while the C-terminus extends well into the lateral domain of the synaptonemal complex (By similarity). Only rarely detected at centromeres during leptotene and zygotene. Detected at centromeres during mid-diplotene, when it is no longer present along chromosome arms. No longer detected at centromeres at later stages of meiosis (By similarity). {ECO:0000250 UniProtKB:Q03410, ECO:0000250 UniProtKB:Q62209}.

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 SYCP1 gene
Compartment Confidence
nucleus 5
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SYCP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000775 chromosome, centromeric region IEA --
GO:0000794 condensed nuclear chromosome IEA --
GO:0000795 synaptonemal complex IEA,ISS --
GO:0000801 central element IEA --
GO:0000802 transverse filament IEA --
genes like me logo Genes that share ontologies with SYCP1: view

Pathways & Interactions for SYCP1 Gene

SuperPathways for SYCP1 Gene

SuperPathway Contained pathways
1 Meiosis
.73
2 Cell Cycle, Mitotic
genes like me logo Genes that share pathways with SYCP1: view

Pathways by source for SYCP1 Gene

3 Reactome pathways for SYCP1 Gene

Gene Ontology (GO) - Biological Process for SYCP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000711 meiotic DNA repair synthesis IEA --
GO:0007049 cell cycle IEA --
GO:0007129 synapsis ISS --
GO:0007130 synaptonemal complex assembly ISS,IEA 15944401
GO:0007131 reciprocal meiotic recombination ISS,TAS --
genes like me logo Genes that share ontologies with SYCP1: view

No data available for SIGNOR curated interactions for SYCP1 Gene

Drugs & Compounds for SYCP1 Gene

No Compound Related Data Available

Transcripts for SYCP1 Gene

Unigene Clusters for SYCP1 Gene

Synaptonemal complex protein 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYCP1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12
SP1:
SP2:
SP3: -
SP4:

Relevant External Links for SYCP1 Gene

GeneLoc Exon Structure for
SYCP1
ECgene alternative splicing isoforms for
SYCP1

Expression for SYCP1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYCP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYCP1 Gene

This gene is overexpressed in Testis (x51.2).

Protein differential expression in normal tissues from HIPED for SYCP1 Gene

This gene is overexpressed in Testis (17.2), Ovary (15.4), Urine (8.8), and Fetal heart (7.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SYCP1 Gene



NURSA nuclear receptor signaling pathways regulating expression of SYCP1 Gene:

SYCP1

SOURCE GeneReport for Unigene cluster for SYCP1 Gene:

Hs.112743

mRNA Expression by UniProt/SwissProt for SYCP1 Gene:

Q15431-SYCP1_HUMAN
Tissue specificity: Testis.
genes like me logo Genes that share expression patterns with SYCP1: view

Primer Products

No data available for Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYCP1 Gene

Orthologs for SYCP1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SYCP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYCP1 34 35
  • 99.01 (n)
dog
(Canis familiaris)
Mammalia SYCP1 34 35
  • 89.86 (n)
cow
(Bos Taurus)
Mammalia SYCP1 34 35
  • 89.07 (n)
mouse
(Mus musculus)
Mammalia Sycp1 34 16 35
  • 84.41 (n)
rat
(Rattus norvegicus)
Mammalia Sycp1 34
  • 84.18 (n)
oppossum
(Monodelphis domestica)
Mammalia SYCP1 35
  • 65 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYCP1 35
  • 52 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYCP1 34 35
  • 64.93 (n)
lizard
(Anolis carolinensis)
Reptilia SYCP1 35
  • 51 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sycp1 34
  • 55.12 (n)
zebrafish
(Danio rerio)
Actinopterygii sycp1 34 35
  • 48.72 (n)
Dr.18395 34
Species where no ortholog for SYCP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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 squirt (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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SYCP1 Gene

ENSEMBL:
Gene Tree for SYCP1 (if available)
TreeFam:
Gene Tree for SYCP1 (if available)

Paralogs for SYCP1 Gene

No data available for Paralogs for SYCP1 Gene

Variants for SYCP1 Gene

Sequence variations from dbSNP and Humsavar for SYCP1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000039849 -- 114,854,518(+) CCCCA(A/G)GCCAC intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1000109011 -- 114,900,312(+) ATTTC(A/G)CTCTG intron-variant
rs1000141614 -- 114,902,820(+) ATTGT(A/T)CATAT intron-variant, upstream-variant-2KB
rs1000174629 -- 114,978,493(+) AGTCA(C/T)AGAGA intron-variant
rs1000216449 -- 114,892,600(+) TCTGC(G/T)GGGGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SYCP1 Gene

Variant ID Type Subtype PubMed ID
esv2347804 CNV deletion 18987734
esv2610148 CNV deletion 19546169
esv2674805 CNV deletion 23128226
esv28734 CNV loss 19812545
nsv524392 CNV gain 19592680
nsv528883 CNV loss 19592680
nsv946160 CNV duplication 23825009

Variation tolerance for SYCP1 Gene

Residual Variation Intolerance Score: 13.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.14; 51.52% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYCP1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYCP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYCP1 Gene

Disorders for SYCP1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SYCP1 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
male infertility
  • infertility male
- elite association - COSMIC cancer census association via MalaCards
Search SYCP1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SYCP1

Genetic Association Database (GAD)
SYCP1
Human Genome Epidemiology (HuGE) Navigator
SYCP1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYCP1
genes like me logo Genes that share disorders with SYCP1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SYCP1 Gene

Publications for SYCP1 Gene

  1. Identification of a meiosis-specific protein as a member of the class of cancer/testis antigens. (PMID: 9560255) TA1reci O. … Pfreundschuh M. (Proc. Natl. Acad. Sci. U.S.A. 1998) 2 3 22 64
  2. Human synaptonemal complex protein 1 (SCP1): isolation and characterization of the cDNA and chromosomal localization of the gene. (PMID: 9119375) Meuwissen R.L.J. … Heyting C. (Genomics 1997) 3 4 22 64
  3. Assignment of synaptonemal complex protein 1 (SCP1) to human chromosome 1p13 by fluorescence in situ hybridization and its expression in the testis. (PMID: 9371398) Kondoh N. … Nishimune Y. (Cytogenet. Cell Genet. 1997) 3 4 22 64
  4. X-ray crystallographic studies of the middle part of the human synaptonemal complex protein 1 coiled-coil domain. (PMID: 26323297) Park H.H. (Acta Crystallogr. F 2015) 3 4 64
  5. Evaluation of 172 candidate polymorphisms for association with oligozoospermia or azoospermia in a large cohort of men of European descent. (PMID: 20378615) Aston K.I. … Carrell D.T. (Hum. Reprod. 2010) 3 46 64

Products for SYCP1 Gene

  • Addgene plasmids for SYCP1

Sources for SYCP1 Gene

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