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    TCEA3 transcription elongation factor A3 [ Homo sapiens (human) ]

    Gene ID: 6920, updated on 27-Dec-2024

    Summary

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    Official Symbol
    TCEA3provided by HGNC
    Official Full Name
    transcription elongation factor A3provided by HGNC
    Primary source
    HGNC:HGNC:11615
    See related
    Ensembl:ENSG00000204219 MIM:604128; AllianceGenome:HGNC:11615
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TFIIS; TFIIS.H
    Summary
    Predicted to enable DNA binding activity; translation elongation factor activity; and zinc ion binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in colon (RPKM 19.3), ovary (RPKM 18.5) and 23 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TCEA3 in Genome Data Viewer
    Location:
    1p36.12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (23380909..23424748, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (23214086..23259235, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (23707402..23751241, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein R Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 409 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 410 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:23670710-23671294 Neighboring gene MIR1 retrotransposon enhancer-blocking element Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:23683836-23684671 Neighboring gene Sharpr-MPRA regulatory region 11811 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 359 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 360 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 361 Neighboring gene NANOG hESC enhancer GRCh37_chr1:23697210-23697795 Neighboring gene ZNF436 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 9848 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 362 Neighboring gene zinc finger protein 436 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23709609-23709825 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 363 Neighboring gene NANOG hESC enhancer GRCh37_chr1:23745635-23746193 Neighboring gene uncharacterized LOC124903875 Neighboring gene Sharpr-MPRA regulatory region 12987 Neighboring gene ArfGAP with SH3 domain, ankyrin repeat and PH domain 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23800831-23801332 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23801333-23801832 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 412 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 413 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 414 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 364 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:23829854-23830688 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:23830689-23831522 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:23847293-23848492 Neighboring gene uncharacterized LOC101928163 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23854779-23854975 Neighboring gene E2F transcription factor 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Oncogenic tRNA-derived fragment tRF-Leu-CAG promotes tumorigenesis of lung cancer via targeting TCEA3 and increasing autophagy. Wu F, et al. J Gene Med, 2024 Sep. PMID 39198937
    2. TCEA3 binds to TGF-beta receptor I and induces Smad-independent, JNK-dependent apoptosis in ovarian cancer cells. Cha Y, et al. Cell Signal, 2013 May. PMID 23357533
    3. TCEA3 Attenuates Gastric Cancer Growth by Apoptosis Induction. Li J, et al. Med Sci Monit, 2015 Oct 26. PMID 26498664, Free PMC Article
    4. The transcription elongation factor TCEA3 induces apoptosis in rhabdomyosarcoma. Kazim N, et al. Cell Death Dis, 2020 Jan 27. PMID 31988307, Free PMC Article
    5. USP47-Mediated Deubiquitination and Stabilization of TCEA3 Attenuates Pyroptosis and Apoptosis of Colorectal Cancer Cells Induced by Chemotherapeutic Doxorubicin. Hou X, et al. Front Pharmacol, 2021. PMID 34630087, Free PMC Article

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Oncogenic tRNA-derived fragment tRF-Leu-CAG promotes tumorigenesis of lung cancer via targeting TCEA3 and increasing autophagy.
      Title: Oncogenic tRNA-derived fragment tRF-Leu-CAG promotes tumorigenesis of lung cancer via targeting TCEA3 and increasing autophagy.
    2. The transcription elongation factor TCEA3 induces apoptosis in rhabdomyosarcoma.
      Title: The transcription elongation factor TCEA3 induces apoptosis in rhabdomyosarcoma.
    3. Findings reveal a novel mechanism by which p53 utilizes TFIIS.h to selectively promote the transcriptional elongation of the bax gene, upsurging cell death in response to severe DNA damage.
      Title: TFIIS.h, a new target of p53, regulates transcription efficiency of pro-apoptotic bax gene.
    4. TCEA3 attenuates the proliferation and induces apoptosis of gastric cancer cells
      Title: TCEA3 Attenuates Gastric Cancer Growth by Apoptosis Induction.
    5. Tcea3 binds to TGF-beta I receptor and activates TGF-beta signaling pathway.
      Title: TCEA3 binds to TGF-beta receptor I and induces Smad-independent, JNK-dependent apoptosis in ovarian cancer cells.
    6. Observational study of gene-disease association, gene-environment interaction, and pharmacogenomic / toxicogenomic. (HuGE Navigator)
      Title: Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study.
    7. Observational study of gene-disease association. (HuGE Navigator)
      Title: Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip.
    8. Study demonstrates a strong synergy between hPAF1C and elongation factor SII/TFIIS and an underlying mechanism involving direct hPAF1C-SII interactions and cooperative binding to RNA polymerase II.
      Title: The human PAF1 complex acts in chromatin transcription elongation both independently and cooperatively with SII/TFIIS.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat TFIIS synergizes with HIV-1 Tat during transactivation of the HIV-1 LTR promoter PubMed
    tat HIV-1 Tat directly interacts with SII (TFIIS) as demonstrated by Tat-affinity column purification PubMed

    Go to the HIV-1, Human Interaction Database

    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 GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription elongation by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    transcription elongation factor A protein 3
    Names
    rhabdomyosarcoma antigen MU-RMS-40.22
    transcription elongation factor A (SII), 3
    transcription elongation factor S-II protein 3
    transcription elongation factor TFIIS.h

    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_003196.3 → NP_003187.1  transcription elongation factor A protein 3

      See identical proteins and their annotated locations for NP_003187.1

      Status: VALIDATED

      Source sequence(s)
      AA873235, AK290272, AK300707, AL109936, BE880226, BI835458, BQ003897, CU449151, HY070786
      Consensus CDS
      CCDS44086.1
      UniProtKB/Swiss-Prot
      A8K2K7, O75764, Q5DR83
      Related
      ENSP00000406293.2, ENST00000450454.7
      Conserved Domains (1) summary
      cl02637
      Location:5 → 348
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      23380909..23424748 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011542053.4 → XP_011540355.1  transcription elongation factor A protein 3 isoform X5

      Conserved Domains (1) summary
      cl02637
      Location:5 → 346
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    2. XM_017002201.2 → XP_016857690.1  transcription elongation factor A protein 3 isoform X2

    3. XM_017002202.3 → XP_016857691.1  transcription elongation factor A protein 3 isoform X3

    4. XM_006710864.3 → XP_006710927.1  transcription elongation factor A protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A0U1RQG0, S4R3M9
      Related
      ENSP00000474530.3, ENST00000476978.3
      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:301 → 346
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:5 → 346
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:185 → 292
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    5. XM_017002200.3 → XP_016857689.1  transcription elongation factor A protein 3 isoform X1

    6. XM_017002203.2 → XP_016857692.1  transcription elongation factor A protein 3 isoform X4

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_014040926.1 Reference GRCh38.p14 PATCHES

      Range
      150888..194727 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331930.1 → XP_054187905.1  transcription elongation factor A protein 3 isoform X5

    2. XM_054331927.1 → XP_054187902.1  transcription elongation factor A protein 3 isoform X2

    3. XM_054331928.1 → XP_054187903.1  transcription elongation factor A protein 3 isoform X3

    4. XM_054331931.1 → XP_054187906.1  transcription elongation factor A protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A0U1RQG0, S4R3M9

    5. XM_054331926.1 → XP_054187901.1  transcription elongation factor A protein 3 isoform X1

    6. XM_054331929.1 → XP_054187904.1  transcription elongation factor A protein 3 isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      23214086..23259235 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054338525.1 → XP_054194500.1  transcription elongation factor A protein 3 isoform X5

    2. XM_054338522.1 → XP_054194497.1  transcription elongation factor A protein 3 isoform X2

    3. XM_054338523.1 → XP_054194498.1  transcription elongation factor A protein 3 isoform X3

    4. XM_054338526.1 → XP_054194501.1  transcription elongation factor A protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A0U1RQG0, S4R3M9

    5. XM_054338521.1 → XP_054194496.1  transcription elongation factor A protein 3 isoform X1

    6. XM_054338524.1 → XP_054194499.1  transcription elongation factor A protein 3 isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O75764.2 GenPept UniProtKB/Swiss-Prot:O75764

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