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LOC4342682 transcription initiation factor TFIID subunit 5 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4342682, updated on 10-Oct-2024

Summary

Gene symbol
LOC4342682
Gene description
transcription initiation factor TFIID subunit 5
Locus tag
OSNPB_070205200
Gene type
protein coding
RefSeq status
MODEL
Organism
Oryza sativa Japonica Group
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Expression
Ubiquitous expression in roots after flowering (RPKM 8.9), leaves before flowering (RPKM 7.9) and 6 other tissues See more
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Genomic context

See LOC4342682 in Genome Data Viewer
Location:
chromosome: 7
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 7 NC_089041.1 (5735873..5747895)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (5659651..5671471)

Chromosome 7 - NC_089041.1Genomic Context describing neighboring genes Neighboring gene zeta-carotene desaturase, chloroplastic/chromoplastic Neighboring gene uncharacterized LOC4342681 Neighboring gene cytochrome b-c1 complex subunit 7 Neighboring gene protein neprosin Neighboring gene aminopeptidase P2

Genomic regions, transcripts, and products

Expression

  • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
  • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
  • BioProject: PRJNA243371
  • Publication: PMID 26387578
  • Analysis date: Fri Dec 15 20:02:59 2017

General protein information

Preferred Names
transcription initiation factor TFIID subunit 5
Names
Os07g0205200
P0431A02.36
putative TATA box binding protein-associated factor

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

Reference ASM3414082v1 Primary Assembly

Genomic

  1. NC_089041.1 Reference ASM3414082v1 Primary Assembly

    Range
    5735873..5747895
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_066312299.1XP_066168396.1  transcription initiation factor TFIID subunit 5 isoform X4

  2. XM_026026977.2XP_025882762.1  transcription initiation factor TFIID subunit 5 isoform X1

    UniProtKB/TrEMBL
    B8B897, B9FW36
    Conserved Domains (3) summary
    cd00200
    Location:461711
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:400463
    7WD40; WD40 repeat [structural motif]
    pfam04494
    Location:62236
    TFIID_NTD2; WD40 associated region in TFIID subunit, NTD2 domain
  3. XM_026026974.2XP_025882759.1  transcription initiation factor TFIID subunit 5 isoform X1

    UniProtKB/TrEMBL
    B8B897, B9FW36
    Conserved Domains (3) summary
    cd00200
    Location:461711
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:400463
    7WD40; WD40 repeat [structural motif]
    pfam04494
    Location:62236
    TFIID_NTD2; WD40 associated region in TFIID subunit, NTD2 domain
  4. XM_066312298.1XP_066168395.1  transcription initiation factor TFIID subunit 5 isoform X4

  5. XM_015791041.3XP_015646527.1  transcription initiation factor TFIID subunit 5 isoform X2

    UniProtKB/TrEMBL
    B8B897, B9FW36
    Conserved Domains (3) summary
    cd00200
    Location:411661
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:350413
    7WD40; WD40 repeat [structural motif]
    pfam04494
    Location:62184
    TFIID_NTD2; WD40 associated region in TFIID subunit, NTD2 domain
  6. XM_026026978.2XP_025882763.1  transcription initiation factor TFIID subunit 5 isoform X3

    UniProtKB/TrEMBL
    B8B897, B9FW36
    Conserved Domains (3) summary
    cd00200
    Location:377627
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:316379
    7WD40; WD40 repeat [structural motif]
    pfam04494
    Location:51152
    TFIID_NTD2; WD40 associated region in TFIID subunit, NTD2 domain

RNA

  1. XR_010742505.1 RNA Sequence

  2. XR_003243434.2 RNA Sequence