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 PK20829.1
Organism
Cannabis sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Cannabis
Family C3H
Protein Properties Length: 126aa    MW: 14494.3 Da    PI: 4.9534
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PK20829.1genomeCCBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH30.65.7e-101437225
               -S---SGGGGTS--TTTTT-SS-S CS
    zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
               ++++C+f+++ G C++GdrC++ H
  PK20829.1 14 DRVNCPFYFKIGACRHGDRCSRLH 37
               6899******************** 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
PfamPF006421.2E-71437IPR000571Zinc finger, CCCH-type
PRINTSPR018487.2E-421837IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549282.58E-1032126IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018487.2E-423757IPR009145U2 auxiliary factor small subunit
PROSITE profilePS501028.89344126IPR000504RNA recognition motif domain
Gene3DG3DSA:3.30.70.3309.8E-2044126IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018487.2E-427590IPR009145U2 auxiliary factor small subunit
PRINTSPR018487.2E-42103125IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0048573Biological Processphotoperiodism, flowering
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 126 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHTKP SISPTLLLSN MYQRPDMITP  60
GVDAQGQPID PREMQKHFEE FYEDLFQELS KYGEIESLNI CDNLADHMVG NVYVQFREEE  120
HAANAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A3e-4911261121Splicing 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004294039.12e-88PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_011460687.12e-88PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_011460689.12e-88PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_011460690.12e-88PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_024157186.12e-88splicing factor U2af small subunit B-like
RefseqXP_024157187.12e-88splicing factor U2af small subunit B-like
SwissprotQ6AUG07e-79U2AFB_ORYSJ; Splicing factor U2af small subunit B
TrEMBLA0A2P5BX384e-89A0A2P5BX38_PARAD; U2 auxiliary factor small subunit
STRINGXP_004294039.17e-88(Fragaria vesca)
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
AT3G44785.11e-32C3H 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]