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Tcea1 transcription elongation factor A (SII) 1 [ Mus musculus (house mouse) ]

Gene ID: 21399, updated on 12-May-2024

Summary

Official Symbol
Tcea1provided by MGI
Official Full Name
transcription elongation factor A (SII) 1provided by MGI
Primary source
MGI:MGI:1196624
See related
Ensembl:ENSMUSG00000033813 AllianceGenome:MGI:1196624
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
S-II
Summary
Predicted to enable DNA binding activity and zinc ion binding activity. Acts upstream of or within erythrocyte differentiation and positive regulation of transcription by RNA polymerase II. Located in nucleoplasm. Is expressed in several structures, including central nervous system; early conceptus; genitourinary system; lung; and spleen. Orthologous to human TCEA1 (transcription elongation factor A1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E11.5 (RPKM 29.3), liver E14 (RPKM 24.7) and 24 other tissues See more
Orthologs
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Genomic context

See Tcea1 in Genome Data Viewer
Location:
1 A1; 1 1.79 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (4927917..4968132)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (4857694..4897909)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene lysophospholipase 1 Neighboring gene STARR-seq mESC enhancer starr_00043 Neighboring gene predicted gene, 57794 Neighboring gene high mobility group box 3 pseudogene Neighboring gene STARR-seq mESC enhancer starr_00045 Neighboring gene regulator of G-protein signaling 20 Neighboring gene STARR-seq mESC enhancer starr_00046 Neighboring gene STARR-seq mESC enhancer starr_00048 Neighboring gene predicted gene 16041 Neighboring gene STARR-seq mESC enhancer starr_00049 Neighboring gene STARR-seq mESC enhancer starr_00050 Neighboring gene heat shock protein 1 (chaperonin) pseudogene 17

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Targeted (1)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC103154

Gene Ontology Provided by MGI

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 protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus 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

Preferred Names
transcription elongation factor A protein 1
Names
transcription elongation factor S-II protein 1
transcription elongation factor TFIIS.o

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_001159750.1NP_001153222.1  transcription elongation factor A protein 1 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence and uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (3) has a shorter and distinct N-terminus and lacks an internal aa compared to isoform 1.
    Source sequence(s)
    AK136035, BC083127, CD545750, CJ059479
    UniProtKB/TrEMBL
    Q3UPE0
    Conserved Domains (1) summary
    cl02637
    Location:4300
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
  2. NM_001159751.1NP_001153223.1  transcription elongation factor A protein 1 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AK131928, AK136035, BC083127
    Consensus CDS
    CCDS48212.1
    UniProtKB/TrEMBL
    E9PYD5, Q3UPE0
    Related
    ENSMUSP00000129157.3, ENSMUST00000165720.3
    Conserved Domains (4) summary
    cd00183
    Location:3589
    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:265311
    Zn-ribbon_TFIIS; domain III/zinc ribbon domain of Transcription Factor IIS
    TIGR01385
    Location:33312
    TFSII; transcription elongation factor S-II
    pfam07500
    Location:149256
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
  3. NM_011541.4NP_035671.1  transcription elongation factor A protein 1 isoform 2

    See identical proteins and their annotated locations for NP_035671.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AK136035, BC083127, CJ059479
    Consensus CDS
    CCDS35505.1
    UniProtKB/Swiss-Prot
    P10711, P10712, P23713
    UniProtKB/TrEMBL
    Q3UPE0, Q3UWX7
    Related
    ENSMUSP00000080266.8, ENSMUST00000081551.14
    Conserved Domains (1) summary
    cl02637
    Location:4301
    TFIIS_M; Transcription factor S-II (TFIIS), central domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    4927917..4968132
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)