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SYCP2L synaptonemal complex protein 2 like [ Homo sapiens (human) ]

Gene ID: 221711, updated on 12-Oct-2019

Summary

Official Symbol
SYCP2Lprovided by HGNC
Official Full Name
synaptonemal complex protein 2 likeprovided by HGNC
Primary source
HGNC:HGNC:21537
See related
Ensembl:ENSG00000153157 MIM:616799
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NO145; C6orf177; dJ62D2.1
Expression
Broad expression in testis (RPKM 2.2), placenta (RPKM 0.6) and 16 other tissues See more
Orthologs

Genomic context

See SYCP2L in Genome Data Viewer
Location:
6p24.2
Exon count:
30
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (10887052..10974309)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (10887064..10974542)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene male germ cell associated kinase Neighboring gene glial cells missing transcription factor 2 Neighboring gene uncharacterized LOC101928191 Neighboring gene Sharpr-MPRA regulatory region 7443 Neighboring gene ELOVL fatty acid elongase 2 Neighboring gene siah E3 ubiquitin protein ligase family member 3 pseudogene Neighboring gene ELOVL2 antisense RNA 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Phenotypes

NHGRI GWAS Catalog

Description
Genetic loci associated with plasma phospholipid n-3 fatty acids: a meta-analysis of genome-wide association studies from the CHARGE Consortium.
NHGRI GWA Catalog
Genome-wide association studies identify loci associated with age at menarche and age at natural menopause.
NHGRI GWA Catalog
Genome-wide association study on dimethylarginines reveals novel AGXT2 variants associated with heart rate variability but not with overall mortality.
NHGRI GWA Catalog
Integrated Genome-wide Association, Coexpression Network, and Expression Single Nucleotide Polymorphism Analysis Identifies Novel Pathway in Allergic Rhinitis.
NHGRI GWA Catalog
Meta-analyses identify 13 loci associated with age at menopause and highlight DNA repair and immune pathways.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Component Evidence Code Pubs
condensed nuclear chromosome, centromeric region IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
synaptonemal complex protein 2-like
Names
145 kDa nucleolar protein homolog
SCP-2-like

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001040274.3NP_001035364.2  synaptonemal complex protein 2-like

    See identical proteins and their annotated locations for NP_001035364.2

    Status: VALIDATED

    Source sequence(s)
    AI027433, AK294018, AL357497, AM293674, DB077181
    Consensus CDS
    CCDS43423.1
    UniProtKB/Swiss-Prot
    Q5T4T6
    UniProtKB/TrEMBL
    B4DFB8
    Related
    ENSP00000283141.6, ENST00000283141.11

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    10887052..10974309
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_194299.1: Suppressed sequence

    Description
    NM_194299.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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