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    Nelfe negative elongation factor complex member E [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294258, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Nelfeprovided by RGD
    Official Full Name
    negative elongation factor complex member Eprovided by RGD
    Primary source
    RGD:1303325
    See related
    EnsemblRapid:ENSRNOG00000000420 AllianceGenome:RGD:1303325
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Rd; Rdbp
    Summary
    Enables chromatin binding activity. Involved in positive regulation of ERK1 and ERK2 cascade; positive regulation of protein modification process; and regulation of transcription by RNA polymerase II. Predicted to be located in nuclear body and plasma membrane. Predicted to be part of NELF complex. Predicted to be active in chromatin and nucleus. Orthologous to human NELFE (negative elongation factor complex member E). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 120.8), Testes (RPKM 105.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nelfe in Genome Data Viewer
    Location:
    20p12
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (3981259..3987016, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (3976512..3982389, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (4530328..4536085)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene zinc finger and BTB domain containing 12 Neighboring gene complement C2 Neighboring gene complement factor B Neighboring gene SKI2 subunit of superkiller complex Neighboring gene decapping exoribonuclease

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Striatal NELF-mediated RNA polymerase II stalling controls L-dopa induced dyskinesia. Bastide MF, et al. Neurobiol Dis, 2016 Jan. PMID 26480869
    2. Rapid activity-induced transcription of Arc and other IEGs relies on poised RNA polymerase II. Saha RN, et al. Nat Neurosci, 2011 May 29. PMID 21623364, Free PMC Article
    3. Negative elongation factor NELF controls transcription of immediate early genes in a stimulus-specific manner. Fujita T, et al. Exp Cell Res, 2009 Jan 15. PMID 19014935
    4. Transcription elongation factors are involved in programming hormone production in pituitary neuroendocrine GH4C1 cells. Fujita T, et al. Mol Cell Endocrinol, 2010 May 5. PMID 20097260
    5. Antisense RNA polymerase II divergent transcripts are P-TEFb dependent and substrates for the RNA exosome. Flynn RA, et al. Proc Natl Acad Sci U S A, 2011 Jun 28. PMID 21670248, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NELF-mediated RNA polymerase II stalling plays a key role in L-Dopa-induced dyskinesia pathophysiology
      Title: Striatal NELF-mediated RNA polymerase II stalling controls L-dopa induced dyskinesia.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables chromatin binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription elongation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of ERK1 and ERK2 cascade IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of protein modification process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    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
    		  
    is_active_in chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    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

    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_001165901.1 → NP_001159373.1  negative elongation factor E

      See identical proteins and their annotated locations for NP_001159373.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      BC079427, CO401737
      UniProtKB/TrEMBL
      A0A8J8XR86, F1LP40, Q6AXP2, Q6MG75
      Related
      ENSRNOP00000000478.6, ENSRNOT00000000478.9
      Conserved Domains (1) summary
      cd12305
      Location:256 → 330
      RRM_NELFE; RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins

    2. NM_212548.2 → NP_997713.1  negative elongation factor E

      See identical proteins and their annotated locations for NP_997713.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      BC079427
      UniProtKB/TrEMBL
      A0A8J8XR86, F1LP40, Q6AXP2, Q6MG75
      Related
      ENSRNOP00000098069.1, ENSRNOT00000120387.2
      Conserved Domains (1) summary
      cd12305
      Location:256 → 330
      RRM_NELFE; RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086038.1 Reference GRCr8

      Range
      3981259..3987016 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006255922.5 → XP_006255984.1  negative elongation factor E isoform X1

      See identical proteins and their annotated locations for XP_006255984.1

      UniProtKB/TrEMBL
      A0A8J8XR86, F1LP40, Q6AXP2, Q6MG75
      Conserved Domains (1) summary
      cd12305
      Location:256 → 330
      RRM_NELFE; RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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