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    Tcea1 transcription elongation factor A1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362479, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Tcea1provided by RGD
    Official Full Name
    transcription elongation factor A1provided by RGD
    Primary source
    RGD:1309880
    See related
    EnsemblRapid:ENSRNOG00000022323 AllianceGenome:RGD:1309880
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA binding activity and zinc ion binding activity. Involved in positive regulation of exoribonuclease activity. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of transcription factor TFIID complex. Predicted to be active in nucleus. Orthologous to human TCEA1 (transcription elongation factor A1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 391.2), Spleen (RPKM 367.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tcea1 in Genome Data Viewer
    Location:
    5q12
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (19414351..19466629, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (14631454..14668769, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (14511183..14548494, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene ATPase H+ transporting V1 subunit H Neighboring gene heat shock protein family D (Hsp60) member 1, pseudogene 36 Neighboring gene regulator of G-protein signaling 20 Neighboring gene lysophospholipase 1 Neighboring gene mitochondrial ribosomal protein L15

    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. Comparative TFIIS-mediated transcript cleavage by mammalian RNA polymerase II arrested at a lesion in different transcription systems. Kalogeraki VS, et al. DNA Repair (Amst), 2005 Sep 28. PMID 16046193
    2. Transcription elongation factor S-II is required for definitive hematopoiesis. Ito T, et al. Mol Cell Biol, 2006 Apr. PMID 16581793, Free PMC Article
    3. Identification of EloA-BP1, a novel Elongin A binding protein with an exonuclease homology domain. Tamura K, et al. Biochem Biophys Res Commun, 2003 Sep 12. PMID 12943681
    4. Identification of a novel tissue-specific transcriptional activator FESTA as a protein that interacts with the transcription elongation factor S-II. Saso K, et al. J Biochem, 2003 Apr. PMID 12761297
    5. Control of transcriptional elongation. Kwak H, et al. Annu Rev Genet, 2013. PMID 24050178, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC116288

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within erythrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of exoribonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription elongation by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription factor TFIID complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription factor TFIID complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcription elongation factor A protein 1
    Names
    transcription elongation factor A (SII) 1
    transcription elongation factor S-II protein 1

    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_001025735.1 → NP_001020906.1  transcription elongation factor A protein 1

      See identical proteins and their annotated locations for NP_001020906.1

      Status: PROVISIONAL

      Source sequence(s)
      BC099141
      UniProtKB/Swiss-Prot
      Q4KLL0
      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2, A6K054
      Related
      ENSRNOP00000010893.7, ENSRNOT00000010893.8
      Conserved Domains (1) summary
      TIGR01385
      Location:4 → 301
      TFSII; transcription elongation factor S-II

    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_086023.1 Reference GRCr8

      Range
      19414351..19466629 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287894.1 → XP_063143964.1  transcription elongation factor A protein 1 isoform X1

      UniProtKB/Swiss-Prot
      Q4KLL0
      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2, A6K054

    2. XM_063287895.1 → XP_063143965.1  transcription elongation factor A protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2

    3. XM_006237816.4 → XP_006237878.1  transcription elongation factor A protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006237878.1

      UniProtKB/Swiss-Prot
      Q4KLL0
      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2, A6K054
      Conserved Domains (1) summary
      TIGR01385
      Location:4 → 301
      TFSII; transcription elongation factor S-II

    4. XM_063287896.1 → XP_063143966.1  transcription elongation factor A protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2

    5. XM_063287897.1 → XP_063143967.1  transcription elongation factor A protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2

    6. XM_039110212.2 → XP_038966140.1  transcription elongation factor A protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 266
      TFSII; transcription elongation factor S-II

    7. XM_039110213.2 → XP_038966141.1  transcription elongation factor A protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8L2Q4Y0, A6JFJ2
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 266
      TFSII; transcription elongation factor S-II

    RNA

    1. XR_010066407.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q4KLL0.1 GenPept UniProtKB/Swiss-Prot:Q4KLL0

    Gene LinkOut

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

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