Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SYCP2L Gene

Aliases for SYCP2L Gene

  • Synaptonemal Complex Protein 2 Like 2 3 5
  • Synaptonemal Complex Protein 2-Like 2 3
  • 145 KDa Nucleolar Protein Homolog 3 4
  • SCP-2-Like 3 4
  • C6orf177 3 4
  • NO145 3 4
  • Chromosome 6 Open Reading Frame 177 2
  • DJ62D2.1 3
  • HsNO145 4

External Ids for SYCP2L Gene

Previous HGNC Symbols for SYCP2L Gene

  • C6orf177

Previous GeneCards Identifiers for SYCP2L Gene

  • GC06P010997
  • GC06P010762

Summaries for SYCP2L Gene

GeneCards Summary for SYCP2L Gene

SYCP2L (Synaptonemal Complex Protein 2 Like) is a Protein Coding gene. An important paralog of this gene is SYCP2.

UniProtKB/Swiss-Prot for SYCP2L Gene

  • Oocyte-specific protein that localizes to centromeres at the dictyate stage and regulates the survival of primordial oocytes.

Additional gene information for SYCP2L Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYCP2L Gene

Genomics for SYCP2L Gene

GeneHancer (GH) Regulatory Elements for SYCP2L Gene

Promoters and enhancers for SYCP2L 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
GH06I010886 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 586.4 +0.3 269 1.9 PKNOX1 ARNT SIN3A FEZF1 ZNF2 POLR2B ZNF766 CBX5 E2F8 ZNF548 SYCP2L GCM2 RNA5SP203 GC06M010903 ENSG00000272162
GH06I011042 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 16.1 +156.7 156676 2.3 PKNOX1 ARNT ZNF133 ARID4B SIN3A GLI4 ZNF2 ZNF48 ZNF766 GLIS2 PIR47110 ELOVL2-AS1 ELOVL2 RNA5SP203 TFAP2A-AS1 SYCP2L GCM2 ENSG00000235051 HIVEP1 ERVFRD-1
GH06I010517 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.2 -365.5 -365543 7.1 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A FEZF1 ZNF2 POLR2B ZNF766 GCNT2 LOC101928146 PAK1IP1 C6orf52 TMEM14B RNA5SP203 SYCP2L GC06M010576
GH06I011010 Enhancer 1.3 Ensembl ENCODE dbSUPER 17.1 +125.1 125145 3.3 FOXA2 MLX ARID4B DMAP1 ETS1 YY1 SLC30A9 DEK RXRA SP5 ELOVL2-AS1 SYCP2L ELOVL2 GCM2 ENSG00000235051 LOC100421248 LOC101928191
GH06I010837 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 10.9 -48.6 -48597 2.3 HDGF SMAD1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZBTB7B YY1 SLC30A9 MAK ENSG00000235051 GCM2 SYCP2L GCNT2 RNA5SP203 ENSG00000272162 TMEM14B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SYCP2L on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SYCP2L gene promoter:

Genomic Locations for SYCP2L Gene

Genomic Locations for SYCP2L Gene
chr6:10,886,831-10,979,320
(GRCh38/hg38)
Size:
92,490 bases
Orientation:
Plus strand
chr6:10,748,027-10,979,553
(GRCh37/hg19)

Genomic View for SYCP2L Gene

Genes around SYCP2L on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYCP2L Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYCP2L Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYCP2L Gene

Proteins for SYCP2L Gene

  • Protein details for SYCP2L Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5T4T6-SYC2L_HUMAN
    Recommended name:
    Synaptonemal complex protein 2-like
    Protein Accession:
    Q5T4T6
    Secondary Accessions:
    • A6NDS5
    • Q08GK5
    • Q6ZRM2
    • Q96EJ2

    Protein attributes for SYCP2L Gene

    Size:
    812 amino acids
    Molecular mass:
    93599 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=CAI16226.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAI22075.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for SYCP2L Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYCP2L Gene

Post-translational modifications for SYCP2L Gene

No Post-translational modifications

Other Protein References for SYCP2L Gene

No data available for DME Specific Peptides for SYCP2L Gene

Domains & Families for SYCP2L Gene

Gene Families for SYCP2L Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SYCP2L Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SYCP2L Gene

Graphical View of Domain Structure for InterPro Entry

Q5T4T6

UniProtKB/Swiss-Prot:

SYC2L_HUMAN :
  • Belongs to the SYCP2 family.
Family:
  • Belongs to the SYCP2 family.
genes like me logo Genes that share domains with SYCP2L: view

Function for SYCP2L Gene

Molecular function for SYCP2L Gene

UniProtKB/Swiss-Prot Function:
Oocyte-specific protein that localizes to centromeres at the dictyate stage and regulates the survival of primordial oocytes.

Phenotypes From GWAS Catalog for SYCP2L Gene

genes like me logo Genes that share phenotypes with SYCP2L: view

Animal Models for SYCP2L Gene

MGI Knock Outs for SYCP2L:

miRNA for SYCP2L Gene

miRTarBase miRNAs that target SYCP2L

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SYCP2L Gene

Localization for SYCP2L Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYCP2L Gene

Nucleus. Chromosome, centromere. Note=Localized to the synaptonemal complex lateral elements in late diplotene oocytes, while it is absent on the synaptonemal complex of leptotene, zygotene, pachytene and early diplotene oocytes (By similarity). Localizes to centromeres in dictyate oocytes (By similarity). Detected in nuclear granules and sizable aggregates (PubMed:17374641). {ECO:0000250 UniProtKB:A0A0M3U1B0, ECO:0000269 PubMed:17374641}.

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 SYCP2L gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SYCP2L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000780 condensed nuclear chromosome, centromeric region IDA 26362258
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with SYCP2L: view

Pathways & Interactions for SYCP2L Gene

SuperPathways for SYCP2L Gene

No Data Available

Interacting Proteins for SYCP2L Gene

STRING Interaction Network Preview (showing 3 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000283141%0d%0a9606.ENSP00000340995%0d%0a9606.ENSP00000266743%0d%0a9606.ENSP00000354720%0d%0a
Selected Interacting proteins: ENSP00000283141 Q5T4T6-SYC2L_HUMAN for SYCP2L Gene via STRING IID

Gene Ontology (GO) - Biological Process for SYCP2L Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SYCP2L Gene

Drugs & Compounds for SYCP2L Gene

No Compound Related Data Available

Transcripts for SYCP2L Gene

mRNA/cDNA for SYCP2L Gene

Unigene Clusters for SYCP2L Gene

Synaptonemal complex protein 2-like:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYCP2L Gene

No ASD Table

Relevant External Links for SYCP2L Gene

GeneLoc Exon Structure for
SYCP2L
ECgene alternative splicing isoforms for
SYCP2L

Expression for SYCP2L Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYCP2L Gene

mRNA differential expression in normal tissues according to GTEx for SYCP2L Gene

This gene is overexpressed in Testis (x4.4).

Protein differential expression in normal tissues from HIPED for SYCP2L Gene

This gene is overexpressed in Neutrophil (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SYCP2L Gene



Protein tissue co-expression partners for SYCP2L Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYCP2L Gene:

SYCP2L

SOURCE GeneReport for Unigene cluster for SYCP2L Gene:

Hs.729128

mRNA Expression by UniProt/SwissProt for SYCP2L Gene:

Q5T4T6-SYC2L_HUMAN
Tissue specificity: Expressed in the ovary (at protein level).
genes like me logo Genes that share expression patterns with SYCP2L: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYCP2L Gene

Orthologs for SYCP2L Gene

This gene was present in the common ancestor of chordates.

Orthologs for SYCP2L Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYCP2L 33 34
  • 99.34 (n)
dog
(Canis familiaris)
Mammalia SYCP2L 33 34
  • 80.34 (n)
cow
(Bos Taurus)
Mammalia SYCP2L 33 34
  • 79 (n)
mouse
(Mus musculus)
Mammalia Sycp2l 33 16 34
  • 67.56 (n)
rat
(Rattus norvegicus)
Mammalia Sycp2l 33
  • 63.36 (n)
oppossum
(Monodelphis domestica)
Mammalia SYCP2L 34
  • 61 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYCP2L 34
  • 54 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYCP2L 33 34
  • 63.09 (n)
lizard
(Anolis carolinensis)
Reptilia SYCP2L 34
  • 24 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sycp2l 33
  • 56.49 (n)
African clawed frog
(Xenopus laevis)
Amphibia NO145 33
zebrafish
(Danio rerio)
Actinopterygii sycp2l 33 34
  • 50 (n)
Species where no ortholog for SYCP2L was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 SYCP2L Gene

ENSEMBL:
Gene Tree for SYCP2L (if available)
TreeFam:
Gene Tree for SYCP2L (if available)

Paralogs for SYCP2L Gene

Paralogs for SYCP2L Gene

(1) SIMAP similar genes for SYCP2L Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with SYCP2L: view

Variants for SYCP2L Gene

Sequence variations from dbSNP and Humsavar for SYCP2L Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000010719 -- 10,906,283(+) G/A intron_variant
rs1000039077 -- 10,959,724(+) C/G intron_variant
rs1000052587 -- 10,945,963(+) T/C intron_variant
rs1000064583 -- 10,906,622(+) A/C/T intron_variant
rs1000159413 -- 10,929,034(+) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SYCP2L Gene

Variant ID Type Subtype PubMed ID
esv2506207 CNV insertion 19546169
nsv1124031 CNV deletion 24896259
nsv348982 CNV deletion 16902084
nsv519009 CNV loss 19592680
nsv519302 CNV loss 19592680

Variation tolerance for SYCP2L Gene

Residual Variation Intolerance Score: 56% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.63; 78.27% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYCP2L Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYCP2L

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYCP2L Gene

Disorders for SYCP2L Gene

Additional Disease Information for SYCP2L

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

No disorders were found for SYCP2L Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYCP2L Gene

Publications for SYCP2L Gene

  1. Accelerated reproductive aging in females lacking a novel centromere protein SYCP2L. (PMID: 26362258) Zhou J … Wang PJ (Human molecular genetics 2015) 3 4 58
  2. Meta-analyses identify 13 loci associated with age at menopause and highlight DNA repair and immune pathways. (PMID: 22267201) Stolk L … Lunetta KL (Nature genetics 2012) 3 44 58
  3. Genetic loci associated with plasma phospholipid n-3 fatty acids: a meta-analysis of genome-wide association studies from the CHARGE Consortium. (PMID: 21829377) Lemaitre RN … Steffen LM (PLoS genetics 2011) 3 44 58
  4. Genome-wide association studies identify loci associated with age at menarche and age at natural menopause. (PMID: 19448621) He C … Chasman DI (Nature genetics 2009) 3 44 58
  5. Integrated genome-wide association, coexpression network, and expression single nucleotide polymorphism analysis identifies novel pathway in allergic rhinitis. (PMID: 25085501) Bunyavanich S … Weiss ST (BMC medical genomics 2014) 3 58

Products for SYCP2L Gene

Sources for SYCP2L Gene

Content
Loading form....