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    tcea3 transcription elongation factor A (SII), 3 [ Danio rerio (zebrafish) ]

    Gene ID: 402983, updated on 4-Jan-2025

    Summary

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    Official Symbol
    tcea3provided by ZNC
    Official Full Name
    transcription elongation factor A (SII), 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1860
    See related
    Ensembl:ENSDARG00000004724 AllianceGenome:ZFIN:ZDB-GENE-040426-1860
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:77732
    Summary
    Predicted to enable DNA binding activity; translation elongation factor activity; and zinc ion binding activity. Predicted to act upstream of or within transcription elongation by RNA polymerase II and translational elongation. Predicted to be located in nucleus. Is expressed in adaxial cell; musculature system; neuromast; and somite. Orthologous to human TCEA3 (transcription elongation factor A3). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    human mouse all
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    Genomic context

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    See tcea3 in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (34111911..34135273)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (34157881..34181238)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene zinc finger DHHC-type palmitoyltransferase 18a Neighboring gene terminal nucleotidyltransferase 5ba Neighboring gene opioid receptor, delta 1b Neighboring gene regulator of chromosome condensation 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic Cells. Macaulay IC, et al. Cell Rep, 2016 Feb 2. PMID 26804912, Free PMC Article
    2. Gene-expression analysis of hair cell regeneration in the zebrafish lateral line. Jiang L, et al. Proc Natl Acad Sci U S A, 2014 Apr 8. PMID 24706903, Free PMC Article
    3. Understanding the complexity of epimorphic regeneration in zebrafish caudal fin tissue: A transcriptomic and proteomic approach. Banu S, et al. Genomics, 2022 Mar. PMID 35134499
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC77732

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables translation elongation factor activity 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 DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within transcription elongation by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within translational elongation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    transcription elongation factor A protein 3

    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_205683.1 → NP_991246.1  transcription elongation factor A protein 3

      See identical proteins and their annotated locations for NP_991246.1

      Status: VALIDATED

      Source sequence(s)
      BC065444
      UniProtKB/TrEMBL
      A0A8M1PGN6, Q6P0U5
      Related
      ENSDARP00000013575.8, ENSDART00000006061.10
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:362 → 408
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 409
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:246 → 353
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007127.7 Reference GRCz11 Primary Assembly

      Range
      34111911..34135273
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005158337.5 → XP_005158394.1  transcription elongation factor A protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8M2B4P3, A0A8M3ATK5
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:736 → 782
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 156
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:620 → 727
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    2. XM_017351329.3 → XP_017206818.1  transcription elongation factor A protein 3 isoform X5

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M6YSP1

    3. XM_021466662.2 → XP_021322337.1  transcription elongation factor A protein 3 isoform X8

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M9NZ77
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cl02637
      Location:539 → 745
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
      cl28087
      Location:329 → 416
      FtsK; DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell cycle control, cell division, chromosome partitioning]

    4. XM_021466657.2 → XP_021322332.1  transcription elongation factor A protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M9NZ73
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cl02637
      Location:559 → 765
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
      cl28087
      Location:329 → 416
      FtsK; DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell cycle control, cell division, chromosome partitioning]

    5. XM_021466663.2 → XP_021322338.1  transcription elongation factor A protein 3 isoform X9

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M9P7V0
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cl02637
      Location:539 → 745
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
      cl28087
      Location:329 → 416
      FtsK; DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell cycle control, cell division, chromosome partitioning]

    6. XM_021466660.2 → XP_021322335.1  transcription elongation factor A protein 3 isoform X7

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M9PMC8
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cl02637
      Location:541 → 747
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
      cl28087
      Location:329 → 416
      FtsK; DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell cycle control, cell division, chromosome partitioning]

    7. XM_009292441.4 → XP_009290716.1  transcription elongation factor A protein 3 isoform X10

      UniProtKB/TrEMBL
      A0A8M3AJ90, A0A8M3ATK5
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:680 → 726
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 156
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:564 → 671
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    8. XM_017351328.3 → XP_017206817.1  transcription elongation factor A protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M6Z1R7

    9. XM_021466661.2 → XP_021322336.1  transcription elongation factor A protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M9PJD8
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cl02637
      Location:541 → 747
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
      cl28087
      Location:329 → 416
      FtsK; DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell cycle control, cell division, chromosome partitioning]

    10. XM_021466664.2 → XP_021322339.1  transcription elongation factor A protein 3 isoform X11

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M9PD15
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cl02637
      Location:503 → 709
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
      cl28087
      Location:329 → 416
      FtsK; DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell cycle control, cell division, chromosome partitioning]

    11. XM_021466659.2 → XP_021322334.1  transcription elongation factor A protein 3 isoform X4

      UniProtKB/TrEMBL
      A0A8M3ATK5, A0A8M9PD11
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cl02637
      Location:559 → 765
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
      cl28087
      Location:329 → 416
      FtsK; DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell cycle control, cell division, chromosome partitioning]

    12. XM_009292445.4 → XP_009290720.1  transcription elongation factor A protein 3 isoform X13

      UniProtKB/TrEMBL
      A0A8M3AI93, A0A8M3ATK5
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:644 → 690
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 156
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:528 → 635
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    13. XM_009292446.4 → XP_009290721.1  transcription elongation factor A protein 3 isoform X14

      UniProtKB/TrEMBL
      A0A8M3B1T7, A0A8M9PMD2
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:637 → 683
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 156
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:521 → 628
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    14. XM_068213921.1 → XP_068070022.1  transcription elongation factor A protein 3 isoform X15

      UniProtKB/TrEMBL
      A0A8M9PMD2

    15. XM_009292449.4 → XP_009290724.1  transcription elongation factor A protein 3 isoform X16

      UniProtKB/TrEMBL
      A0A8M3AJ93
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:477 → 523
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 524
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:361 → 468
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    16. XM_009292450.4 → XP_009290725.1  transcription elongation factor A protein 3 isoform X17

      UniProtKB/TrEMBL
      A0A8M3ATL0
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:449 → 495
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 496
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:333 → 440
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    17. XM_009292444.4 → XP_009290719.1  transcription elongation factor A protein 3 isoform X12

      UniProtKB/TrEMBL
      A0A8M3AQQ8, A0A8M3ATK5
      Conserved Domains (3) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:649 → 695
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      pfam07500
      Location:533 → 640
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    18. XM_009292451.4 → XP_009290726.1  transcription elongation factor A protein 3 isoform X18

      UniProtKB/TrEMBL
      A0A8M3AQR4
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:408 → 454
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 455
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:292 → 399
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    19. XM_068213923.1 → XP_068070024.1  transcription elongation factor A protein 3 isoform X19

    20. XM_009292452.4 → XP_009290727.1  transcription elongation factor A protein 3 isoform X20

      UniProtKB/TrEMBL
      A0A8M3AI98
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:352 → 398
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 399
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:236 → 343
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    21. XM_009292453.4 → XP_009290728.1  transcription elongation factor A protein 3 isoform X21

      UniProtKB/TrEMBL
      A0A8M3B1U0
      Related
      ENSDARP00000118795.1, ENSDART00000134037.3
      Conserved Domains (4) summary
      cd00183
      Location:4 → 80
      TFIIS_I; N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
      cd13749
      Location:334 → 380
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 381
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:218 → 325
      TFIIS_M; Transcription factor S-II (TFIIS), central domain
    Nucleotide Protein
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