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 Pavir.3KG371700.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family C3H
Protein Properties Length: 599aa    MW: 65436.6 Da    PI: 7.3189
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG371700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.11.1e-06125148125
                          --S---SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaH 25 
                          + t++C f+ + G+C+ G++C F H
  Pavir.3KG371700.1.p 125 WATKICTFYTQ-GWCNKGNSCAFLH 148
                          5699***9999.************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.103.0E-7121151IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.962124151IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.5E-7124149IPR000571Zinc finger, CCCH-type
SMARTSM003560.0019124150IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-4125148IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010220Biological Processpositive regulation of vernalization response
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 599 aa     Download sequence    Send to blast
MGSAGGRVGA TDQIPEVEMD VVEGAPEEPG RVGSKRVRDS PSALGSHGFY GVTTAEKKPM  60
LQPHNVDKSL SKAGNSNLLH MNSDGASKMG GRYLRGADGL GTPDSIALRL NISSPCENLE  120
NETKWATKIC TFYTQGWCNK GNSCAFLHER EGGFAKAGLL APPGFENHRG SEEGSQVQHQ  180
SNLKVLQFKD AEGSSKDERY RRLIHAYGED NVRLAHIADK RNSTTPGISQ GLHGTGSMEH  240
SLVVHEKTNK PFMRHHTGLS PETYLDGRHI LLDGGDFESG MDRRNDFSNA HVARTYLDVN  300
TLNSGHQFRS SGLSISSDPF QLSEKLSAYG ATTDNLSNTH QKEHHSSLAS YSSHGLTGFR  360
NPGYAASETS RPALLSSSSS EPYIMSAGPL SPIKDEVWVT SVPFVPSFSF PDSTTPPGSQ  420
YDPFVDCIEP PKVGDTDNLK SSNVSFSTSS QHTNQYVITD ESLNPDDKLT RNMSAKGANG  480
SAYLISADRV RSSSLDDYNR LKAHDRKICA ASNEEKARDF RFHLAEHIKE LVKPIWKEGN  540
LSKDAHKLVV KKSVEKIVDS IRPNQMPTSE ELIAKYITTS GSKIEKLVKA YVDRHRTT*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.448081e-139callus| leaf| root
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG371700.1.p
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_025806080.10.0zinc finger CCCH domain-containing protein 36-like
SwissprotQ75K811e-150C3H36_ORYSJ; Zinc finger CCCH domain-containing protein 36
TrEMBLA0A2S3HAT30.0A0A2S3HAT3_9POAL; Uncharacterized protein
STRINGPavir.Ca01361.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP110102123
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33835.13e-17C3H family protein
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]