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    Nelfb negative elongation factor complex member B [ Mus musculus (house mouse) ]

    Gene ID: 58202, updated on 9-Dec-2024

    Summary

    Official Symbol
    Nelfbprovided by MGI
    Official Full Name
    negative elongation factor complex member Bprovided by MGI
    Primary source
    MGI:MGI:1931035
    See related
    Ensembl:ENSMUSG00000013465 AllianceGenome:MGI:1931035
    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
    Cobra1; Nelf-b; A730008L03Rik
    Summary
    This gene encodes subunit B of a metazoan-specific, four-subunit protein complex that regulates promoter-proximal pausing of RNA polymerase II. RNA polymerase II pausing is thought to be important for coordination of gene transcription during embryonic development and stress responses. Consistently, disruption of this gene in mouse causes inner cell mass deficiency and embryonic lethality. In addition, this gene is required for maintenance of mouse embryonic stem cells by preventing expression of developmental genes. In adult mice, conditional deletion of this gene results in cardiomyopathy and impaired response to cardiac stress. Multiple protein isoforms are encoded through the use of a non-AUG (CUG) initiation codon and an alternative downstream AUG initiation codon. In addition, alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2015]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 19.3), CNS E11.5 (RPKM 18.0) and 28 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Nelfb in Genome Data Viewer
    Location:
    2 A3; 2 17.06 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (25089724..25101501, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (25199712..25211489, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 52547 Neighboring gene STARR-positive B cell enhancer ABC_E3362 Neighboring gene torsin family 4, member A Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:25052129-25052238 Neighboring gene predicted gene, 22572 Neighboring gene sperm tail PG rich repeat containing 3 Neighboring gene ciliary microtubule inner protein 2A Neighboring gene tubulin, beta 4B class IVB

    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)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of NELF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of NELF complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of NELF complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in mitochondrial outer membrane TAS
    Traceable Author Statement
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    negative elongation factor B
    Names
    cofactor of BRCA1
    negative elongation factor complex member B, Cobra1
    ortholog of human cofactor of BRCA1 (COBRA1)

    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_001310157.1NP_001297086.1  negative elongation factor B isoform 2

      See identical proteins and their annotated locations for NP_001297086.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and uses alternate splice sites in the 5' coding region, which results in use of a downstream start codon compared to variant 1. It encodes isoform 2, which has a shorter N-terminus than isoform 1.
      Source sequence(s)
      AI843129, AK173124, AL732309, CJ100279, CX241076
      UniProtKB/Swiss-Prot
      A0A0X1KG62, Q69ZP4, Q8C4Y3, Q99J41, Q9JJA5
      Related
      ENSMUST00000128876.8
      Conserved Domains (1) summary
      pfam06209
      Location:2473
      COBRA1; Cofactor of BRCA1 (COBRA1)
    2. NM_021393.3NP_067368.3  negative elongation factor B isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer isoform (1), which is translated using a non-AUG (CUG) start codon.
      Source sequence(s)
      AI843129, AK173124, AL732309, CJ100279
      Consensus CDS
      CCDS15751.2
      UniProtKB/TrEMBL
      A0A5H1ZRL3
      Related
      ENSMUSP00000057731.10, ENSMUST00000059849.15
      Conserved Domains (1) summary
      pfam06209
      Location:155626
      COBRA1; Cofactor of BRCA1 (COBRA1)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000068.8 Reference GRCm39 C57BL/6J

      Range
      25089724..25101501 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)