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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.

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

Genomics for SYCP2L Gene

Regulatory Elements for SYCP2L Gene

Enhancers for SYCP2L 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
GH06G010886 1.1 ENCODE 36.3 +0.3 269 1.9 PKNOX1 CREB3L1 ARNT SIN3A FEZF1 ZNF2 YY1 ZNF766 CBX5 ZNF548 SYCP2L ENSG00000272097 GC06M010903
GH06G011010 1.5 Ensembl ENCODE dbSUPER 17.1 +125.1 125146 3.3 FOXA2 ATF1 MLX ZFP64 ARID4B SIN3A DMAP1 YY1 SLC30A9 DEK ELOVL2-AS1 SYCP2L ELOVL2 GCM2 ENSG00000235051 LOC100421248 LOC101928191
GH06G010517 1.9 FANTOM5 Ensembl ENCODE dbSUPER 11.2 -365.5 -365543 7.1 HDGF FOXA2 PKNOX1 ARNT ARID4B DMAP1 FEZF1 ZNF2 ZNF766 CBX5 GCNT2 PAK1IP1 C6orf52 TMEM14B RNA5SP203 SYCP2L LOC101928146 GC06M010576
GH06G010901 0.8 Ensembl ENCODE 20.1 +15.3 15270 1.0 NFYB EED NFYC ETV6 SPI1 GABPA SYCP2L GC06M010903
GH06G010425 1.5 Ensembl ENCODE dbSUPER 9.3 -457.9 -457904 7.0 PKNOX1 ATF1 CREB3L1 ZFP64 ZNF48 YY1 ZNF766 ZMIZ1 DEK REST GCNT2 ENSG00000235051 SYCP2L GCM2 ENSG00000228478 MIR5689HG
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYCP2L on UCSC Golden Path with GeneCards custom track

Promoters for SYCP2L Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000193042 269 1001 PKNOX1 CREB3L1 ARNT SIN3A FEZF1 ZNF2 YY1 ZNF766 CBX5 ZNF548

Genomic Location for SYCP2L Gene

Chromosome:
6
Start:
10,886,831 bp from pter
End:
10,979,320 bp from pter
Size:
92,490 bases
Orientation:
Plus strand

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

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYCP2L Gene

No data available for DME Specific Peptides for SYCP2L Gene

Domains & Families for SYCP2L Gene

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

No data available for Gene Families for SYCP2L Gene

Function for SYCP2L Gene

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

Animal Models for SYCP2L Gene

MGI Knock Outs for SYCP2L:

Animal Model Products

CRISPR Products

miRNA for SYCP2L Gene

miRTarBase miRNAs that target SYCP2L

Inhibitory RNA Products

Clone Products

No data available for Molecular function , 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. Note=Detected in nuclear granules and sizable aggregates.

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

Gene Ontology (GO) - Cellular Components for SYCP2L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
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.ENSP00000266743%0d%0a9606.ENSP00000340995%0d%0a9606.ENSP00000354720%0d%0a
Selected Interacting proteins: Q5T4T6-SYC2L_HUMAN ENSP00000283141 for SYCP2L Gene via IID STRING

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:

CRISPR Products

Inhibitory RNA Products

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

Primer Products

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 34 35
  • 99.34 (n)
dog
(Canis familiaris)
Mammalia SYCP2L 34 35
  • 80.34 (n)
cow
(Bos Taurus)
Mammalia SYCP2L 34 35
  • 79 (n)
mouse
(Mus musculus)
Mammalia Sycp2l 34 16 35
  • 67.56 (n)
rat
(Rattus norvegicus)
Mammalia Sycp2l 34
  • 63.36 (n)
oppossum
(Monodelphis domestica)
Mammalia SYCP2L 35
  • 61 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYCP2L 35
  • 54 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYCP2L 34 35
  • 63.09 (n)
lizard
(Anolis carolinensis)
Reptilia SYCP2L 35
  • 24 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sycp2l 34
  • 56.49 (n)
African clawed frog
(Xenopus laevis)
Amphibia NO145 34
zebrafish
(Danio rerio)
Actinopterygii sycp2l 34 35
  • 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 Sequence Context AA Info Type
rs1000010719 -- 10,906,283(+) TTACC(A/G)CATTA intron-variant
rs1000039077 -- 10,959,724(+) ATTAG(C/G)CAGGC intron-variant
rs1000052587 -- 10,945,963(+) AGTCT(C/T)TTCAT intron-variant
rs1000064583 -- 10,906,622(+) GATGG(A/C)GTTTT intron-variant
rs1000159413 -- 10,929,034(+) TTATA(A/G)GGGCA 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)

Relevant External Links 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

Relevant External Links for SYCP2L

Genetic Association Database (GAD)
SYCP2L
Human Genome Epidemiology (HuGE) Navigator
SYCP2L
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYCP2L

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. Meta-analyses identify 13 loci associated with age at menopause and highlight DNA repair and immune pathways. (PMID: 22267201) Stolk L. … Lunetta K.L. (Nat. Genet. 2012) 3 46 64
  2. 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 R.N. … Steffen L.M. (PLoS Genet. 2011) 3 46 64
  3. Genome-wide association studies identify loci associated with age at menarche and age at natural menopause. (PMID: 19448621) He C. … Chasman D.I. (Nat. Genet. 2009) 3 46 64
  4. Accelerated reproductive aging in females lacking a novel centromere protein SYCP2L. (PMID: 26362258) Zhou J. … Wang P.J. (Hum. Mol. Genet. 2015) 3 64
  5. Genome-wide association study on dimethylarginines reveals novel AGXT2 variants associated with heart rate variability but not with overall mortality. (PMID: 24159190) SeppAolAo I. … LehtimAoki T. (Eur. Heart J. 2014) 3 64

Products for SYCP2L Gene

Sources for SYCP2L Gene

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