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Synb syncytin b [ Mus musculus (house mouse) ]

Gene ID: 239167, updated on 30-Jan-2018
Official Symbol
Synbprovided by MGI
Official Full Name
syncytin bprovided by MGI
Primary source
MGI:MGI:3045308
See related
Ensembl:ENSMUSG00000047977 Vega:OTTMUSG00000035207
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
syncytin-B; D930020E02Rik
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 an endogenous retrovirus provirus 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 4.6), ovary adult (RPKM 0.3) and 1 other tissue See more
Orthologs
See Synb in Genome Data Viewer
Location:
14; 14 D2
Exon count:
6
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 14 NC_000080.6 (69290378..69297365, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 14 NC_000080.5 (69908455..69912356, complement)

Chromosome 14 - NC_000080.6Genomic Context describing neighboring genes Neighboring gene solute carrier family 25, member 37 Neighboring gene predicted gene, 20236 Neighboring gene predicted gene, 31748 Neighboring gene predicted gene, 41197 Neighboring gene predicted gene, 41196

  • 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

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
labyrinthine layer blood vessel development IMP
Inferred from Mutant Phenotype
more info
PubMed 
plasma membrane fusion ISO
Inferred from Sequence Orthology
more info
 
syncytium formation ISO
Inferred from Sequence Orthology
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 
syncytium formation by plasma membrane fusion ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
Preferred Names
syncytin-B; envelope glycoprotein syncytin-B
Names
placenta-specific/fusogenic

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_173420.3NP_775596.1  syncytin-B precursor

    See identical proteins and their annotated locations for NP_775596.1

    Status: REVIEWED

    Source sequence(s)
    AC134575, AK086309
    Consensus CDS
    CCDS27239.1
    UniProtKB/Swiss-Prot
    Q8BI41
    UniProtKB/TrEMBL
    Q5G5D1
    Related
    ENSMUSP00000061107.2, OTTMUSP00000049029, ENSMUST00000059362.2, OTTMUST00000089676
    Conserved Domains (1) summary
    pfam00429
    Location:360551
    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_000080.6 Reference GRCm38.p4 C57BL/6J

    Range
    69290378..69297365 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006518995.3XP_006519058.1  envelope glycoprotein syncytin-B isoform X1

    See identical proteins and their annotated locations for XP_006519058.1

    UniProtKB/Swiss-Prot
    Q8BI41
    UniProtKB/TrEMBL
    Q5G5D1
    Conserved Domains (1) summary
    pfam00429
    Location:360551
    TLV_coat; ENV polyprotein (coat polyprotein)
  2. XM_006518994.3XP_006519057.1  envelope glycoprotein syncytin-B isoform X1

    See identical proteins and their annotated locations for XP_006519057.1

    UniProtKB/Swiss-Prot
    Q8BI41
    UniProtKB/TrEMBL
    Q5G5D1
    Conserved Domains (1) summary
    pfam00429
    Location:360551
    TLV_coat; ENV polyprotein (coat polyprotein)
  3. XM_006518992.3XP_006519055.1  envelope glycoprotein syncytin-B isoform X1

    See identical proteins and their annotated locations for XP_006519055.1

    UniProtKB/Swiss-Prot
    Q8BI41
    UniProtKB/TrEMBL
    Q5G5D1
    Conserved Domains (1) summary
    pfam00429
    Location:360551
    TLV_coat; ENV polyprotein (coat polyprotein)
  4. XM_006518996.2XP_006519059.1  envelope glycoprotein syncytin-B isoform X1

    See identical proteins and their annotated locations for XP_006519059.1

    UniProtKB/Swiss-Prot
    Q8BI41
    UniProtKB/TrEMBL
    Q5G5D1
    Conserved Domains (1) summary
    pfam00429
    Location:360551
    TLV_coat; ENV polyprotein (coat polyprotein)
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