PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Vang0021ss02750.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family C3H
Protein Properties Length: 287aa    MW: 33726.5 Da    PI: 10.1201
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vang0021ss02750.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.91.9e-091437225
                       -S---SGGGGTS--TTTTT-SS-S CS
            zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
                       ++++C+f+++ G C++GdrC++ H
  Vang0021ss02750.1 14 DRVNCPFYFKIGACRHGDRCSRLH 37
                       6899******************** PP

2zf-CCCH21.15.3e-07124147226
                        -S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                        +++ Cr + +  tC++G+ C+F+H 
  Vang0021ss02750.1 124 REATCRQYEE-NTCNRGGYCNFMHL 147
                        6789**9999.*************6 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.1121240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00651339IPR000571Zinc finger, CCCH-type
PfamPF006424.0E-71437IPR000571Zinc finger, CCCH-type
PRINTSPR018482.2E-271837IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549282.83E-535128IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018482.2E-273757IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.122122149IPR000571Zinc finger, CCCH-type
SMARTSM003560.13122148IPR000571Zinc finger, CCCH-type
PfamPF006427.0E-5124147IPR000571Zinc finger, CCCH-type
PRINTSPR018482.2E-27139151IPR009145U2 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: 287 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHTKP SISPTILLSN MYQRPDMITP  60
GVDAHGHPID PRKIQDHFEE FYEDLFEELS KEEEHAANAV RNLTGRFYAG RPIIVDFSPV  120
TDFREATCRQ YEENTCNRGG YCNFMHLKRI SRDLRHQLFG KHHRRHSRSR SRSPYRHRSH  180
EERSHRSHSR KHDDRDHHHE SRSRRHKSTS PEHRRGRSRS PGRRRHRSPV RDGSEERRAR  240
IEQWNREKEE QDPGNKTKAV DIDNGSGIPA YKETKLIPVY HGMCTG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A2e-5011581179Splicing 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
PlantRegMapVang0021ss02750.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150400.0AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017425057.11e-163PREDICTED: splicing factor U2af small subunit B-like isoform X1
RefseqXP_017425058.11e-163PREDICTED: splicing factor U2af small subunit B-like isoform X1
RefseqXP_017425059.11e-163PREDICTED: splicing factor U2af small subunit B-like isoform X1
RefseqXP_017425060.11e-163PREDICTED: splicing factor U2af small subunit B-like isoform X1
RefseqXP_017425061.11e-163PREDICTED: splicing factor U2af small subunit B-like isoform X1
RefseqXP_017425063.11e-163PREDICTED: splicing factor U2af small subunit B-like isoform X1
RefseqXP_017425064.11e-163PREDICTED: splicing factor U2af small subunit B-like isoform X1
SwissprotQ9ZQW81e-104U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A4D6N6P71e-170A0A4D6N6P7_VIGUN; Splicing factor U2AF a subunit
STRINGXP_007150110.11e-151(Phaseolus vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G44785.12e-29C3H 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. 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]