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    Syce2 synaptonemal complex central element protein 2 [ Mus musculus (house mouse) ]

    Gene ID: 71846, updated on 23-Jun-2021

    Summary

    Official Symbol
    Syce2provided by MGI
    Official Full Name
    synaptonemal complex central element protein 2provided by MGI
    Primary source
    MGI:MGI:1919096
    See related
    Ensembl:ENSMUSG00000003824
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Cesc1; AA407907; 1700013H19Rik
    Expression
    Biased expression in testis adult (RPKM 31.9), liver E14 (RPKM 10.9) and 11 other tissues See more
    Orthologs
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    Genomic context

    See Syce2 in Genome Data Viewer
    Location:
    8; 8 C3
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (85598740..85614075)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (84872111..84887446)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 8 NC_000074.5 (87396010..87411345)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700122E12 gene Neighboring gene predicted gene 5911 Neighboring gene phenylalanyl-tRNA synthetase, alpha subunit Neighboring gene microRNA 7069 Neighboring gene glutaryl-Coenzyme A dehydrogenase Neighboring gene predicted gene, 39213 Neighboring gene Kruppel-like factor 1 (erythroid)

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1)  1 citation
    • Endonuclease-mediated (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell division IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within meiotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within synaptonemal complex assembly IC
    Inferred by Curator
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in central element IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in central element IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in chromosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in synaptonemal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 

    General protein information

    Preferred Names
    synaptonemal complex central element protein 2
    Names
    central element synaptonemal complex 1
    central element synaptonemal complex protein 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001168244.1NP_001161716.1  synaptonemal complex central element protein 2 isoform 3

      See identical proteins and their annotated locations for NP_001161716.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC161765, AK082833, AK167332
      UniProtKB/Swiss-Prot
      Q505B8
    2. NM_001168246.1NP_001161718.1  synaptonemal complex central element protein 2 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC161765
      Consensus CDS
      CCDS52620.1
      UniProtKB/TrEMBL
      E9PYH4
      Related
      ENSMUSP00000131438.2, ENSMUST00000170296.2
    3. NM_027954.3NP_082230.2  synaptonemal complex central element protein 2 isoform 2

      See identical proteins and their annotated locations for NP_082230.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1
      Source sequence(s)
      AC161765, AK005954, AK082833, BY246600
      Consensus CDS
      CCDS22481.1
      UniProtKB/Swiss-Prot
      Q505B8
      Related
      ENSMUSP00000122159.2, ENSMUST00000136026.8

    RNA

    1. NR_031759.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC161765, AK082833, BY083329
      Related
      ENSMUST00000003922.6

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000074.7 Reference GRCm39 C57BL/6J

      Range
      85598740..85614075
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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