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 Phvul.003G009100.1
Common NamePHAVU_003G009100g
Organism
Phaseolus vulgaris
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; Phaseolus
Family C3H
Protein Properties Length: 259aa    MW: 30270.8 Da    PI: 10.0836
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.003G009100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.99.4e-101438226
                        -S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                        ++++C+f+++ G C++GdrC++ H 
  Phvul.003G009100.1 14 DRVNCPFYFKIGSCRHGDRCSRLHN 38
                        6899********************7 PP
2zf-CCCH215.8e-07139162226
                         -S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                         +++ Cr f +   C++G+ C+F+H+
  Phvul.003G009100.1 139 REATCRQFEE-NSCNRGGYCNFMHV 162
                         6789**9999.*************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.2721240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00971339IPR000571Zinc finger, CCCH-type
PfamPF006422.5E-71438IPR000571Zinc finger, CCCH-type
PRINTSPR018487.3E-401837IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549282.05E-632143IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018487.3E-403757IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.8E-1344133IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018487.3E-407590IPR009145U2 auxiliary factor small subunit
PRINTSPR018487.3E-40103125IPR009145U2 auxiliary factor small subunit
SMARTSM003560.014137163IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.591137164IPR000571Zinc finger, CCCH-type
PfamPF006426.3E-5139163IPR000571Zinc finger, CCCH-type
PRINTSPR018487.3E-40154166IPR009145U2 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: 259 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGSCRHG DRCSRLHNRP SISPTLLLSN MYQRPDMITP  60
GVDPQGQPLD PRKIQQHFED FYEDIFTELA KFGEIESLNV CDNLADHMIG NVKALHALHG  120
RFYNARPIIA DFSPVTDFRE ATCRQFEENS CNRGGYCNFM HVKLIGRDLR RRLFGRNHRG  180
GGGYYHINQS RSRSRSRSRS PRHRRERRER DSHSGGRRDY RERDGGGRRR HAESPAREGS  240
EERRARIEQW NREREVKE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A4e-6311731179Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1194203RSRSRSPRHR
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPhvul.003G009100.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150431e-159AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007153127.10.0hypothetical protein PHAVU_003G009100g
RefseqXP_007153128.10.0hypothetical protein PHAVU_003G009100g
RefseqXP_007153129.10.0hypothetical protein PHAVU_003G009100g
SwissprotQ9FMY51e-121U2AFB_ARATH; Splicing factor U2af small subunit B
TrEMBLV7C6X40.0V7C6X4_PHAVU; Uncharacterized protein
STRINGXP_007153127.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF1251810
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.12e-30C3H family protein
Publications ? help Back to Top
  1. Day IS, et al.
    Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing.
    Plant J., 2012. 71(6): p. 936-47
    [PMID:22563826]
  2. Kim DW,Jeon SJ,Hwang SM,Hong JC,Bahk JD
    The C3H-type zinc finger protein GDS1/C3H42 is a nuclear-speckle-localized protein that is essential for normal growth and development in Arabidopsis.
    Plant Sci., 2016. 250: p. 141-153
    [PMID:27457991]
  3. Park HY, et al.
    The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms.
    Plant Cell Rep., 2017. 36(7): p. 1113-1123
    [PMID:28432478]