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    TCEA2 transcription elongation factor A2 [ Homo sapiens (human) ]

    Gene ID: 6919, updated on 2-Nov-2024

    Summary

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    Official Symbol
    TCEA2provided by HGNC
    Official Full Name
    transcription elongation factor A2provided by HGNC
    Primary source
    HGNC:HGNC:11614
    See related
    Ensembl:ENSG00000171703 MIM:604784; AllianceGenome:HGNC:11614
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TFIIS
    Summary
    The protein encoded by this gene is found in the nucleus, where it functions as an SII class transcription elongation factor. Elongation factors in this class are responsible for releasing RNA polymerase II ternary complexes from transcriptional arrest at template-encoded arresting sites. The encoded protein has been shown to interact with general transcription factor IIB, a basal transcription factor. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in testis (RPKM 9.5), brain (RPKM 6.6) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TCEA2 in Genome Data Viewer
    Location:
    20q13.33
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (64055596..64072347)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (65875622..65892426)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (62688325..62703700)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18260 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:62667815-62668408 Neighboring gene chromosome 20 open reading frame 204 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:62668409-62669002 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13199 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13200 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13201 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13202 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13203 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:62676871-62677791 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13204 Neighboring gene SOX18 promoter region Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:62684293-62684982 Neighboring gene SRY-box transcription factor 18 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:62686363-62687052 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:62687053-62687742 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:62688433-62689122 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:62689123-62689810 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18262 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18263 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13205 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18264 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13206 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13207 Neighboring gene regulator of G protein signaling 19 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:62711846-62712019 Neighboring gene microRNA 6813 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13208 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13209 Neighboring gene opioid related nociceptin receptor 1 Neighboring gene LKAAEAR motif containing 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. RNA polymerase II complexes in the very early phase of transcription are not susceptible to TFIIS-induced exonucleolytic cleavage. Sijbrandi R, et al. Nucleic Acids Res, 2002 Jun 1. PMID 12034815, Free PMC Article
    2. Genomic characterization of a testis-specific TFIIS (TCEA2) gene. Weaver ZA, et al. Genomics, 1997 Dec 15. PMID 9441762
    3. RNA polymerase II bypasses 8-oxoguanine in the presence of transcription elongation factor TFIIS. Kuraoka I, et al. DNA Repair (Amst), 2007 Jun 1. PMID 17374514
    4. PITSLRE p110 protein kinases associate with transcription complexes and affect their activity. Trembley JH, et al. J Biol Chem, 2002 Jan 25. PMID 11709559
    5. GRIP1tau, a novel PDZ domain-containing transcriptional activator, cooperates with the testis-specific transcription elongation factor SII-T1. Nakata A, et al. Genes Cells, 2004 Nov. PMID 15507123

    See all (42) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SII is important for preventing cellular death due to oxidative DNA damage, assisting RNAPII to bypass 8-oxoG
      Title: RNA polymerase II bypasses 8-oxoguanine in the presence of transcription elongation factor TFIIS.
    2. RNA polymerase II complexes in the very early phase of transcription are not susceptible to TFIIS-induced exonucleolytic cleavage.
      Title: RNA polymerase II complexes in the very early phase of transcription are not susceptible to TFIIS-induced exonucleolytic cleavage.
    3. data suggest that because TFIIS promotes escape from promoter-proximal pauses by stimulating cleavage of back-tracked nascent RNA, TFIIS inhibition may help DSIF/NELF negatively regulate productive transcription
      Title: A negative elongation factor for human RNA polymerase II inhibits the anti-arrest transcript-cleavage factor 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 Variants Associated with Serum Thyroid Stimulating Hormone (TSH) Levels in European Americans and African Americans from the eMERGE Network.
    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)

    Genotypes

    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 DNA-templated transcription elongation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription elongation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    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
    located_in centrosome IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription elongation factor complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    transcription elongation factor A protein 2
    Names
    testis-specific S-II
    transcription elongation factor A (SII), 2
    transcription elongation factor S-II protein 2
    transcription elongation factor TFIIS.1
    transcription elongation factor TFIIS.l

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_003195.6 → NP_003186.1  transcription elongation factor A protein 2 isoform a

      See identical proteins and their annotated locations for NP_003186.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (a).
      Source sequence(s)
      BC018896, CA440059, DB482075
      Consensus CDS
      CCDS13553.1
      UniProtKB/Swiss-Prot
      B3KNM1, Q15560, Q8TD37, Q8TD38
      UniProtKB/TrEMBL
      A0A0A0MT58, Q6IB64
      Related
      ENSP00000343515.5, ENST00000343484.10
      Conserved Domains (1) summary
      cl02637
      Location:6 → 299
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    2. NM_198723.2 → NP_942016.1  transcription elongation factor A protein 2 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding region compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a.
      Source sequence(s)
      BC018896, BI756937, CA440059, CB961240
      Consensus CDS
      CCDS13554.1
      UniProtKB/TrEMBL
      A0A0A0MT58
      Related
      ENSP00000354552.2, ENST00000361317.6
      Conserved Domains (1) summary
      cl02637
      Location:1 → 272
      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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      64055596..64072347
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047440438.1 → XP_047296394.1  transcription elongation factor A protein 2 isoform X2

    2. XM_024451981.2 → XP_024307749.1  transcription elongation factor A protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A0A0MT58
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 270
      TFSII; transcription elongation factor S-II

    3. XM_047440432.1 → XP_047296388.1  transcription elongation factor A protein 2 isoform X2

    4. XM_047440433.1 → XP_047296389.1  transcription elongation factor A protein 2 isoform X2

    5. XM_024451976.2 → XP_024307744.1  transcription elongation factor A protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A0A0MT58
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 270
      TFSII; transcription elongation factor S-II

    6. XM_047440436.1 → XP_047296392.1  transcription elongation factor A protein 2 isoform X2

    7. XM_024451984.1 → XP_024307752.1  transcription elongation factor A protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A0A0MT58
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 270
      TFSII; transcription elongation factor S-II

    8. XM_047440434.1 → XP_047296390.1  transcription elongation factor A protein 2 isoform X2

    9. XM_047440437.1 → XP_047296393.1  transcription elongation factor A protein 2 isoform X2

    10. XM_047440431.1 → XP_047296387.1  transcription elongation factor A protein 2 isoform X2

    11. XM_047440441.1 → XP_047296397.1  transcription elongation factor A protein 2 isoform X3

    12. XM_047440435.1 → XP_047296391.1  transcription elongation factor A protein 2 isoform X2

    13. XM_024451983.2 → XP_024307751.1  transcription elongation factor A protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A0A0MT58
      Related
      ENSP00000339432.4, ENST00000339217.8
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 270
      TFSII; transcription elongation factor S-II

    14. XM_047440439.1 → XP_047296395.1  transcription elongation factor A protein 2 isoform X2

      Related
      ENSP00000407085.1, ENST00000440819.5

    15. XM_024451985.2 → XP_024307753.1  transcription elongation factor A protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A0A0MT58
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 270
      TFSII; transcription elongation factor S-II

    16. XM_047440440.1 → XP_047296396.1  transcription elongation factor A protein 2 isoform X2

    17. XM_005260229.5 → XP_005260286.1  transcription elongation factor A protein 2 isoform X1

      See identical proteins and their annotated locations for XP_005260286.1

      UniProtKB/TrEMBL
      A0A0A0MT58
      Conserved Domains (4) summary
      cd00183
      Location:5 → 81
      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:252 → 297
      Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
      TIGR01385
      Location:6 → 297
      TFSII; transcription elongation factor S-II
      pfam07500
      Location:136 → 243
      TFIIS_M; Transcription factor S-II (TFIIS), central domain

    18. XM_047440430.1 → XP_047296386.1  transcription elongation factor A protein 2 isoform X2

    19. XM_047440442.1 → XP_047296398.1  transcription elongation factor A protein 2 isoform X3

    20. XM_024451986.2 → XP_024307754.1  transcription elongation factor A protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A0A0MT58
      Related
      ENSP00000416026.1, ENST00000458442.1
      Conserved Domains (1) summary
      TIGR01385
      Location:1 → 270
      TFSII; transcription elongation factor S-II

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      65875622..65892426
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054323951.1 → XP_054179926.1  transcription elongation factor A protein 2 isoform X2

    2. XM_054323943.1 → XP_054179918.1  transcription elongation factor A protein 2 isoform X2

    3. XM_054323944.1 → XP_054179919.1  transcription elongation factor A protein 2 isoform X2

    4. XM_054323946.1 → XP_054179921.1  transcription elongation factor A protein 2 isoform X2

    5. XM_054323949.1 → XP_054179924.1  transcription elongation factor A protein 2 isoform X2

    6. XM_054323950.1 → XP_054179925.1  transcription elongation factor A protein 2 isoform X2

    7. XM_054323945.1 → XP_054179920.1  transcription elongation factor A protein 2 isoform X2

    8. XM_054323948.1 → XP_054179923.1  transcription elongation factor A protein 2 isoform X2

    9. XM_054323956.1 → XP_054179931.1  transcription elongation factor A protein 2 isoform X3

    10. XM_054323947.1 → XP_054179922.1  transcription elongation factor A protein 2 isoform X2

    11. XM_054323953.1 → XP_054179928.1  transcription elongation factor A protein 2 isoform X2

    12. XM_054323952.1 → XP_054179927.1  transcription elongation factor A protein 2 isoform X2

    13. XM_054323954.1 → XP_054179929.1  transcription elongation factor A protein 2 isoform X2

    14. XM_054323955.1 → XP_054179930.1  transcription elongation factor A protein 2 isoform X2

    15. XM_054323941.1 → XP_054179916.1  transcription elongation factor A protein 2 isoform X1

    16. XM_054323957.1 → XP_054179932.1  transcription elongation factor A protein 2 isoform X3

    17. XM_054323942.1 → XP_054179917.1  transcription elongation factor A protein 2 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q15560.1 GenPept UniProtKB/Swiss-Prot:Q15560

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