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 Traes_5BL_938BFB459.2
Organism
Triticum aestivum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum
Family C3H
Protein Properties Length: 670aa    MW: 76136 Da    PI: 7.6732
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Traes_5BL_938BFB459.2genomeIWGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.91.3e-06128147625
                            -SGGGGTS--TTTTT-SS-S CS
                zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                            C+f+++t  C++G rC++ H
  Traes_5BL_938BFB459.2 128 CPFYLKTAACRFGVRCSRVH 147
                            ******************99 PP
2zf-CCCH24.35.3e-08257284126
                            --S---SGGGGTS..--TTTTT-SS-SS CS
                zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                            +k ++C  ++r+   tC++G  C+F+H+
  Traes_5BL_938BFB459.2 257 WKSAICGEYMRSRfkTCSHGVACNFIHC 284
                            7999***********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.131122150IPR000571Zinc finger, CCCH-type
SMARTSM003567.8123149IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-4127147IPR000571Zinc finger, CCCH-type
PRINTSPR018483.3E-37128147IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.3E-37147167IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.5E-25153252IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501029.917154254IPR000504RNA recognition motif domain
CDDcd125409.23E-50155252No hitNo description
SMARTSM003617.7E-6176250IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018483.3E-37183198IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549281.09E-16185252IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018483.3E-37211233IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.3E-37238262IPR009145U2 auxiliary factor small subunit
SMARTSM003560.02256285IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.314256286IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-5257284IPR000571Zinc finger, CCCH-type
PRINTSPR018483.3E-37276288IPR009145U2 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: 670 aa     Download sequence    Send to blast
AASRAAEEAA AEEEARAAEA SARDKYNDDH RDETEDDGEW EYIEDGPAEI IWQGNEIIVK  60
KKKIKIPKKA EDKPLSQEEE RPTSNPLPPQ SVAVASQRRE PSLSARELLE KVAQETPNFG  120
TEQDKAHCPF YLKTAACRFG VRCSRVHFYP DKSCTLLMKN MYNGPGLVLE QDEGLEFTDE  180
EIEQSYEEFY EDVHTEFLKF GELVNFKVCR NGSFHLRGNV YVHYKALDSA LLAYNSMNGR  240
YFAGKQITCE FVALTKWKSA ICGEYMRSRF KTCSHGVACN FIHCFRNPGG DYEWADWDNP  300
PPKYWTRKMA ALFGPSDDAV FDKASDTPDF ERLHSSDRKR LRSSDDRYIS SRHGDGGAHK  360
RHSSRVFSHS KQEQSNHIMK HGHTRHRREA SAANEQRGQE IEDDTGRYCS PMENERVSQA  420
HKHEEKHRDG HGDVARGYNG KIKSRKHRSE RHESLESGCS DWPSEFADAG TSRSPSGSKS  480
TNRYNDHKRN RRQSSDDPNL ERGYSAADKS SGKAHIAKSS SRHYVEDDSC GEKGSGRGKS  540
GKHSDHCDDP DDRWLATNSD VDSDAETRFP RSSSGVGKGG RNDNAPPDED DRYRRSSSRS  600
GRSRAKDDKS SRKRKKRHSE IRKNSDSDDD PSDSSDVRDL SLHARRSRSR SSEEGLSLHK  660
RRKGRRGHDS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-321192839167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1611615RKRKK
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3618180.0AK361818.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, partial cds, clone: NIASHv1150D09.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020147330.10.0zinc finger CCCH domain-containing protein 16
SwissprotQ6YVX90.0C3H16_ORYSJ; Zinc finger CCCH domain-containing protein 16
TrEMBLA0A3B6LT290.0A0A3B6LT29_WHEAT; Uncharacterized protein
STRINGTraes_5BL_938BFB459.20.0(Triticum aestivum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92961317
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-137C3H 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. Brenchley R, et al.
    Analysis of the bread wheat genome using whole-genome shotgun sequencing.
    Nature, 2012. 491(7426): p. 705-10
    [PMID:23192148]