PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Do014304.1
Organism
Dichanthelium oligosanthes
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Dichantheliinae; Dichanthelium
Family C3H
Protein Properties Length: 147aa    MW: 17222.3 Da    PI: 9.5711
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Do014304.1genomeDichanView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.12.6e-077497226
                -S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                +++ Cr + +   C++G+ C+F+H+
  Do014304.1 74 REATCRQYEE-NSCNRGGYCNFMHV 97
                6789**9999.*************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF549286.18E-12473IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3306.1E-122269IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018482.7E-302749IPR009145U2 auxiliary factor small subunit
PRINTSPR018482.7E-305478IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.7987299IPR000571Zinc finger, CCCH-type
PfamPF006423.2E-57498IPR000571Zinc finger, CCCH-type
PRINTSPR018482.7E-3089101IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 147 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGANLAD HMIGNVYVQF REEEQAAAAY NALQGRYYSG  60
RPIIVEYSPV TDFREATCRQ YEENSCNRGG YCNFMHVKQI GRDLRRKIYG RRHGSPPPRR  120
GRSPVRESSE ERRAKIEQWN REREAKQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A6e-272410495179Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapDo014304.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJF9448131e-114JF944813.1 Setaria italica SiU2af35 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020110750.15e-63splicing factor U2af small subunit B-like
RefseqXP_020110751.15e-63splicing factor U2af small subunit B-like
RefseqXP_020110752.15e-63splicing factor U2af small subunit B-like
RefseqXP_020110753.15e-63splicing factor U2af small subunit B-like
RefseqXP_020110754.15e-63splicing factor U2af small subunit B-like
SwissprotQ6AUG02e-51U2AFB_ORYSJ; Splicing factor U2af small subunit B
TrEMBLA0A3L6T0E85e-79A0A3L6T0E8_PANMI; Splicing factor U2af subunit
STRINGGSMUA_Achr9P12340_0011e-62(Musa acuminata)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.12e-13C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Domon C,Lorković ZJ,Valcárcel J,Filipowicz W
    Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants.
    J. Biol. Chem., 1998. 273(51): p. 34603-10
    [PMID:9852132]