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    Nelfa negative elongation factor complex member A, Whsc2 [ Mus musculus (house mouse) ]

    Gene ID: 24116, updated on 12-May-2024

    Summary

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    Official Symbol
    Nelfaprovided by MGI
    Official Full Name
    negative elongation factor complex member A, Whsc2provided by MGI
    Primary source
    MGI:MGI:1346098
    See related
    Ensembl:ENSMUSG00000029111 AllianceGenome:MGI:1346098
    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
    Whsc2; Whsc2h
    Summary
    Enables chromatin binding activity. Acts upstream of or within negative regulation of transcription elongation from RNA polymerase II promoter. Located in nucleus. Is expressed in several structures, including early embryo; genitourinary system; liver; spleen; and trunk somite. Orthologous to human NELFA (negative elongation factor complex member A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in thymus adult (RPKM 34.0), limb E14.5 (RPKM 29.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Nelfa in Genome Data Viewer
    Location:
    5 B2; 5 17.83 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (34055263..34093615, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (33897916..33936301, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_12830 Neighboring gene leucine zipper-EF-hand containing transmembrane protein 1 Neighboring gene ribosomal protein S29 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E6319 Neighboring gene ATP synthase subunit g, mitochondrial pseudogene Neighboring gene nuclear receptor binding SET domain protein 2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:34194226-34194436 Neighboring gene STARR-seq mESC enhancer starr_12832 Neighboring gene microRNA 7024 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:34279052-34279239 Neighboring gene STARR-seq mESC enhancer starr_12833 Neighboring gene STARR-seq mESC enhancer starr_12834 Neighboring gene predicted gene, 30802 Neighboring gene NELL2 interacting cell ontogeny regulator 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Acute NelfA knockdown restricts compensatory gene expression and precipitates ventricular dysfunction during cardiac hypertrophy. Alikunju S, et al. J Mol Cell Cardiol, 2020 May. PMID 32278832, Free PMC Article
    2. Maternal factor NELFA drives a 2C-like state in mouse embryonic stem cells. Hu Z, et al. Nat Cell Biol, 2020 Feb. PMID 31932739
    3. MicroRNA-133 controls cardiac hypertrophy. Carè A, et al. Nat Med, 2007 May. PMID 17468766
    4. Comparative analysis of a novel gene from the Wolf-Hirschhorn/Pitt-Rogers-Danks syndrome critical region. Wright TJ, et al. Genomics, 1999 Jul 15. PMID 10409432
    5. A transcript map of the newly defined 165 kb Wolf-Hirschhorn syndrome critical region. Wright TJ, et al. Hum Mol Genet, 1997 Feb. PMID 9063753

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NELFA and BCL2 induce the 2C-like state in mouse embryonic stem cells in a chemically defined medium.
      Title: NELFA and BCL2 induce the 2C-like state in mouse embryonic stem cells in a chemically defined medium.
    2. Acute NelfA knockdown restricts compensatory gene expression and precipitates ventricular dysfunction during cardiac hypertrophy.
      Title: Acute NelfA knockdown restricts compensatory gene expression and precipitates ventricular dysfunction during cardiac hypertrophy.
    3. Maternal factor NELFA drives a 2C-like state in mouse embryonic stem cells through Dux.
      Title: Maternal factor NELFA drives a 2C-like state in mouse embryonic stem cells.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (4) 
    • Gene trapped (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables molecular adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of transcription elongation by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of transcription elongation by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of transcription elongation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein modification process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    negative elongation factor A
    Names
    Wolf-Hirschhorn syndrome candidate 2 homolog

    NCBI Reference Sequences (RefSeq)

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    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_001415983.1 → NP_001402912.1  negative elongation factor A isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC163329

    2. NM_001415984.1 → NP_001402913.1  negative elongation factor A isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC163329

    3. NM_001415985.1 → NP_001402914.1  negative elongation factor A isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC163329

    4. NM_001415986.1 → NP_001402915.1  negative elongation factor A isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC163329

    5. NM_001415987.1 → NP_001402916.1  negative elongation factor A isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC163329

    6. NM_001415988.1 → NP_001402917.1  negative elongation factor A isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC163329

    7. NM_011914.4 → NP_036044.1  negative elongation factor A isoform 1

      See identical proteins and their annotated locations for NP_036044.1

      Status: VALIDATED

      Source sequence(s)
      AC163329
      Consensus CDS
      CCDS19208.1
      UniProtKB/Swiss-Prot
      Q8BG30, Q8BVE4, Q8VEI7, Q9CSJ9, Q9Z1V9
      UniProtKB/TrEMBL
      Q3UK41
      Related
      ENSMUSP00000030993.7, ENSMUST00000030993.8

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      34055263..34093615 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BG30.1 GenPept UniProtKB/Swiss-Prot:Q8BG30

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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