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Syna syncytin a [ Mus musculus (house mouse) ]

Gene ID: 214292, updated on 27-Jan-2018
Official Symbol
Synaprovided by MGI
Official Full Name
syncytin aprovided by MGI
Primary source
MGI:MGI:2684898
See related
Ensembl:ENSMUSG00000085957 Vega:OTTMUSG00000055748
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gm52; Gm453; syncytin-A
Summary
Many different endogenous retrovirus families are expressed in normal placental tissue at high levels, suggesting that endogenous retroviruses are functionally important in reproduction. This gene is part of a mouse endogenous retrovirus provirus on chromosome 5 that has inactivating mutations in the gag and pol genes. This gene is the envelope glycoprotein gene which appears to have been selectively preserved. The gene's protein product plays a major role in placental development and trophoblast fusion. The protein has the characteristics of a typical retroviral envelope protein, including a cleavage site that separates the surface (SU) and transmembrane (TM) proteins which form a heterodimer. [provided by RefSeq, Apr 2015]
Expression
Biased expression in placenta adult (RPKM 3.7), duodenum adult (RPKM 1.9) and 10 other tissues See more
Orthologs
See Syna in Genome Data Viewer
Location:
5; 5 G2
Exon count:
7
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 5 NC_000071.6 (134557254..134577076, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (135034110..135035963, complement)

Chromosome 5 - NC_000071.6Genomic Context describing neighboring genes Neighboring gene ribosomal protein S28 pseudogene Neighboring gene CAP-GLY domain containing linker protein 2 Neighboring gene microRNA 7228 Neighboring gene replication factor C (activator 1) 2 Neighboring gene linker for activation of T cells family, member 2

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Markers

Gene Ontology Provided by MGI

Process Evidence Code Pubs
labyrinthine layer development IMP
Inferred from Mutant Phenotype
more info
PubMed 
multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
syncytium formation by plasma membrane fusion IDA
Inferred from Direct Assay
more info
PubMed 
syncytium formation by plasma membrane fusion IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
syncytin-A; envelope glycoprotein syncytin-A

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_001013751.2NP_001013773.1  syncytin-A precursor

    See identical proteins and their annotated locations for NP_001013773.1

    Status: REVIEWED

    Source sequence(s)
    AC166938, BC138919
    Consensus CDS
    CCDS19721.1
    UniProtKB/Swiss-Prot
    Q5G5D5
    Related
    ENSMUSP00000116437.3, OTTMUSP00000072585, ENSMUST00000149604.4, OTTMUST00000137949
    Conserved Domains (1) summary
    pfam00429
    Location:339575
    TLV_coat; ENV polyprotein (coat polyprotein)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000071.6 Reference GRCm38.p4 C57BL/6J

    Range
    134557254..134577076 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006504404.3XP_006504467.1  envelope glycoprotein syncytin-A isoform X1

    See identical proteins and their annotated locations for XP_006504467.1

    UniProtKB/Swiss-Prot
    Q5G5D5
    Conserved Domains (1) summary
    pfam00429
    Location:339575
    TLV_coat; ENV polyprotein (coat polyprotein)
  2. XM_011240875.2XP_011239177.1  envelope glycoprotein syncytin-A isoform X1

    See identical proteins and their annotated locations for XP_011239177.1

    UniProtKB/Swiss-Prot
    Q5G5D5
    Conserved Domains (1) summary
    pfam00429
    Location:339575
    TLV_coat; ENV polyprotein (coat polyprotein)
  3. XM_006504406.3XP_006504469.1  envelope glycoprotein syncytin-A isoform X1

    See identical proteins and their annotated locations for XP_006504469.1

    UniProtKB/Swiss-Prot
    Q5G5D5
    Conserved Domains (1) summary
    pfam00429
    Location:339575
    TLV_coat; ENV polyprotein (coat polyprotein)
  4. XM_011240874.2XP_011239176.1  envelope glycoprotein syncytin-A isoform X1

    See identical proteins and their annotated locations for XP_011239176.1

    UniProtKB/Swiss-Prot
    Q5G5D5
    Conserved Domains (1) summary
    pfam00429
    Location:339575
    TLV_coat; ENV polyprotein (coat polyprotein)
  5. XM_011240877.2XP_011239179.1  envelope glycoprotein syncytin-A isoform X1

    See identical proteins and their annotated locations for XP_011239179.1

    UniProtKB/Swiss-Prot
    Q5G5D5
    Conserved Domains (1) summary
    pfam00429
    Location:339575
    TLV_coat; ENV polyprotein (coat polyprotein)
  6. XM_017320789.1XP_017176278.1  envelope glycoprotein syncytin-A isoform X2

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