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.1NG017200.1.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: 430aa    MW: 49048.8 Da    PI: 10.087
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG017200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH18.34e-063356126
                         --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                         ykt+lC  ++r G C++ d C+FaHg
  Pavir.1NG017200.1.p 33 YKTKLCTLWQR-GGCSR-DPCSFAHG 56
                         9**********.*****.*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.103.3E-112762IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.04E-53161IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.2443258IPR000571Zinc finger, CCCH-type
SMARTSM003560.00813257IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 430 aa     Download sequence    Send to blast
MRDRSVDREF LSRERGDRPP PGMLGPPRRG PAYKTKLCTL WQRGGCSRDP CSFAHGHAEL  60
RRFPGSRTSF PSRAGRRDYR GGDFRDRFDR RRSPHRRHSP DRDSRGHRPL QDRRAGSQER  120
ESSYSRSPSR KSERRHEKKP DDGETNSSRS FSISDKNDDK KKEALLGADD KEDQEIKLKQ  180
IRQEMELLHE DKSRLEIILD EKNAEVHKIS SRVNDLELQI RKEKEECHRM TSKIKKFIKA  240
HARFLKAQEE LKRSQARFER LGDLLASDIL KRGANEEVSS MNVDEAPSGP SERSPNAATA  300
KKRSIPYSTS EEAKAVKRRS DRDAEFDKPS QGTEPTKALY LKKKLWEDER DKIGNVVSSA  360
NIDKVKDSLA KHVLPSTGMA AHAVDDLFEA VELEARHDAI NTSIENGAGC ETRSPAIPPQ  420
LPPVVNAYEQ
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG017200.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0402400.0BT040240.1 Zea mays full-length cDNA clone ZM_BFc0072P19 mRNA, complete cds.
GenBankEU9620390.0EU962039.1 Zea mays clone 239776 zinc finger C-x8-C-x5-C-x3-H type family protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815366.10.0zinc finger CCCH domain-containing protein 13-like isoform X1
SwissprotQ6H7U20.0C3H13_ORYSJ; Zinc finger CCCH domain-containing protein 13
TrEMBLA0A2T8KU070.0A0A2T8KU07_9POAL; Uncharacterized protein
STRINGPavir.Aa03281.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP38822943
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G21810.12e-20C3H 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]