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 mrna29236.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family C3H
Protein Properties Length: 865aa    MW: 99705.5 Da    PI: 7.8301
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna29236.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH231.4e-07307334126
                              --S---SGGGGTS..--TTTTT-SS-SS CS
                  zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                              +k ++C  + ++   tC++G+ C+F+H+
  mrna29236.1-v1.0-hybrid 307 WKVAICGEYVKSRykTCSRGSACNFIHC 334
                              799*******99999************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.601172200IPR000571Zinc finger, CCCH-type
SMARTSM0035612173199IPR000571Zinc finger, CCCH-type
PRINTSPR018481.2E-37178197IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.2E-37197217IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.1E-22204302IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5010210.292204304IPR000504RNA recognition motif domain
CDDcd125407.19E-47205303No hitNo description
SMARTSM003613.8E-7226300IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018481.2E-37233248IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549281.04E-14236305IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.2E-37261283IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.2E-37288312IPR009145U2 auxiliary factor small subunit
SMARTSM003560.022306335IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311306336IPR000571Zinc finger, CCCH-type
PfamPF006422.5E-5307334IPR000571Zinc finger, CCCH-type
PRINTSPR018481.2E-37326338IPR009145U2 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: 865 aa     Download sequence    Send to blast
MSRKEKRKGI KKMKRKQARK DIALKQRQEQ EEEDPQDLIL IEQEEAKRSE AVRLIFEDRE  60
RAWLQAMEIR KQEELRIKAL EEEQQQIEDG DDDDWEYVEE GPAEIIYRGN EITIKKKRVK  120
VPKRNKVQQE EDSDRPTSNP LPPQSQAIDD HKNSSLSAQQ LIQTQVPHFG TEQDKDHCPF  180
HLKTGACRFG QHCSRVHFYP DKSSTLLIKN MYNGPGLTWE HDEGLEYTDE EIERCYEEFY  240
EDVHTEFLKF GEIINFKVCI NGASHLRGNV YIQYSALESA LVAHQSINGR YFAGKQISCD  300
FINVTRWKVA ICGEYVKSRY KTCSRGSACN FIHCFRNPGG DYEWADSDRP PPKYWVEKMV  360
ALFGYSDAYQ KQIMEDNTGQ MKNTRMSMTD SRRFSEVPSR GRYVVQRSSS RDRSYSSYTG  420
SGGRYDNEYY APKGTGHQRP SGEENTYLKD YNHRKNRKYY IESDGEFLDT DGDMDRDIYH  480
GHKRKSSRQE NRDQTNKTSE TESDEHLLER GRNRLNRLTE HCSTRKSSSQ QGKAGVRHDY  540
GDCEKKVHEV GDRSTRDKDR ESYHDSRRSS GHKRKVGYDH KDQKCKAQDS DGEWSDSIRR  600
GEEHHAIRKS LVHIGNSSKG SKERESSGWS STAELSEELL DKDAEKDTGH ANKQSKHWDK  660
VADGNRAAAQ DVKHARGHLS LNTKEADSPV KISKSYDNID KQDRWEPEHN SEVKAGNSES  720
HQSSDFVSKL YCDDKVGKVE HRYEAGEVTS SKHQTSRRLS AKSNGERDNG KRSRGSSKSG  780
YRRRSNSSDD VTDSSEDNKE TTSASAANIP EVTCRNWFTS PCSEKRPKGR ESPTCFLGNG  840
WFPFIPRHAY RANKEDPGSC LIKH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A3e-311693339167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna29236.1-v1.0-hybrid
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004300010.20.0PREDICTED: zinc finger CCCH domain-containing protein 5
TrEMBLM5XNZ20.0M5XNZ2_PRUPE; Uncharacterized protein
STRINGXP_004300010.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF47132433
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-137C3H family protein