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    Nelfe negative elongation factor complex member E, Rdbp [ Mus musculus (house mouse) ]

    Gene ID: 27632, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Nelfeprovided by MGI
    Official Full Name
    negative elongation factor complex member E, Rdbpprovided by MGI
    Primary source
    MGI:MGI:102744
    See related
    Ensembl:ENSMUSG00000024369 AllianceGenome:MGI:102744
    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
    RD; Rdbp; NELF-E; D17H6S45
    Summary
    Enables chromatin binding activity. Involved in negative regulation of transcription elongation by RNA polymerase II. Is active in chromatin. Is expressed in brain and early conceptus. Orthologous to human NELFE (negative elongation factor complex member E). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 47.2), CNS E11.5 (RPKM 20.2) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Nelfe in Genome Data Viewer
    Location:
    17 B1; 17 18.4 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (35069367..35075348)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (34850391..34856372)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene SKI2 subunit of superkiller complex Neighboring gene microRNA 6971 Neighboring gene microRNA 6970 Neighboring gene STARR-positive B cell enhancer ABC_E5597 Neighboring gene microRNA 6972 Neighboring gene complement factor B Neighboring gene complement C2

    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. Murine D17H6S45 (Rd) gene: polymorphism and overlap with complement factor B. Taylor PR, et al. Mamm Genome, 1997 Oct. PMID 9321489
    2. cDNA cloning and characterization of the protein encoded by RD, a gene located in the class III region of the human major histocompatibility complex. Cheng J, et al. Biochem J, 1993 Sep 1. PMID 8373374, Free PMC Article
    3. A Population Study of Common Ocular Abnormalities in C57BL/6N rd8 Mice. Moore BA, et al. Invest Ophthalmol Vis Sci, 2018 May 1. PMID 29847629, Free PMC Article
    4. The Histone Deacetylase SIRT6 Restrains Transcription Elongation via Promoter-Proximal Pausing. Etchegaray JP, et al. Mol Cell, 2019 Aug 22. PMID 31399344, Free PMC Article
    5. Distinct patterns of RNA polymerase II and transcriptional elongation characterize mammalian genome activation. Abe K, et al. Cell Rep, 2022 Dec 27. PMID 36577375

    See all (39) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (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 RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding 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 by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription elongation by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of transcription elongation by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 negative regulation of transcription elongation by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of ERK1 and ERK2 cascade IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of ERK1 and ERK2 cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein modification process IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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
    		  
    part_of NELF complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in chromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    negative elongation factor E
    Names
    RD RNA-binding protein
    RNA-binding protein RD

    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_001045863.1 → NP_001039328.1  negative elongation factor E

      See identical proteins and their annotated locations for NP_001039328.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate splice site in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AI325150, AK147011, CX203833
      Consensus CDS
      CCDS28662.1
      UniProtKB/Swiss-Prot
      P19426, P97485, P97486, Q9CZN3
      UniProtKB/TrEMBL
      Q3UIA1
      Related
      ENSMUSP00000134272.2, ENSMUST00000173357.8
      Conserved Domains (1) summary
      cd12305
      Location:254 → 328
      RRM_NELFE; RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins

    2. NM_001045864.1 → NP_001039329.1  negative elongation factor E

      See identical proteins and their annotated locations for NP_001039329.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has an alternate splice site in the 5' UTR, compared to variant 1. Variants 1 and 3 encode the same protein.
      Source sequence(s)
      AI325150, CN525174, CT025759, DV662511
      Consensus CDS
      CCDS28662.1
      UniProtKB/Swiss-Prot
      P19426, P97485, P97486, Q9CZN3
      UniProtKB/TrEMBL
      Q3UIA1
      Related
      ENSMUSP00000094956.5, ENSMUST00000097343.11
      Conserved Domains (1) summary
      cd12305
      Location:254 → 328
      RRM_NELFE; RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins

    3. NM_138580.2 → NP_613046.2  negative elongation factor E

      See identical proteins and their annotated locations for NP_613046.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shortest transcript. All variants encode the same protein.
      Source sequence(s)
      AI325150, AK131947, CX203833
      Consensus CDS
      CCDS28662.1
      UniProtKB/Swiss-Prot
      P19426, P97485, P97486, Q9CZN3
      UniProtKB/TrEMBL
      Q3UIA1
      Related
      ENSMUSP00000131195.3, ENSMUST00000165953.3
      Conserved Domains (1) summary
      cd12305
      Location:254 → 328
      RRM_NELFE; RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      35069367..35075348
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P19426.2 GenPept UniProtKB/Swiss-Prot:P19426

    Gene LinkOut

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

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