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.5NG172300.1.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: 374aa    MW: 39605.1 Da    PI: 7.1138
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG172300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH34.34.1e-116288127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         ++++ C +++rtG C +GdrC+++H++
  Pavir.5NG172300.1.p 62 PGEADCGYYLRTGACGFGDRCRYNHPR 88
                         57899********************96 PP
2zf-CCCH37.63.6e-12112137227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          +++ C ++++tGtCk+G++Ck++H++
  Pavir.5NG172300.1.p 112 GQPVCEYYLKTGTCKFGSNCKYHHPK 137
                          7899********************96 PP
3zf-CCCH40.25.4e-13157182227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C+++++tG+Ck+G++CkF+H++
  Pavir.5NG172300.1.p 157 GEKECSYYMKTGQCKFGSTCKFHHPE 182
                          7899********************96 PP
4zf-CCCH39.68.8e-13310336127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          +++++C++++rtG Ck+G++Ck++H++
  Pavir.5NG172300.1.p 310 PGQPECQYYMRTGDCKFGATCKYNHPR 336
                          5789*********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.926189IPR000571Zinc finger, CCCH-type
SMARTSM003565.9E-66188IPR000571Zinc finger, CCCH-type
PfamPF006427.1E-96388IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.24E-66589IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-46788IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.483110138IPR000571Zinc finger, CCCH-type
SMARTSM003564.3E-7110137IPR000571Zinc finger, CCCH-type
PfamPF006426.5E-10112137IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.06E-7113139IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.4E-6115139IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.812155183IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-6155182IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-10157182IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.92E-6158182IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-4161181IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.263309337IPR000571Zinc finger, CCCH-type
SMARTSM003564.4E-6309336IPR000571Zinc finger, CCCH-type
PfamPF006424.2E-10311336IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-5313337IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-4315336IPR000571Zinc 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: 374 aa     Download sequence    Send to blast
MEPPHAEEAA AAGGGGGEGG RASPGTGLEG PMLRLGLDGG GGGEDGEREA DAEADARLPE  60
RPGEADCGYY LRTGACGFGD RCRYNHPRDR GGTEFGGGAK NGAASDFPER QGQPVCEYYL  120
KTGTCKFGSN CKYHHPKQDG SVQSVILNNG GFPLRPGEKE CSYYMKTGQC KFGSTCKFHH  180
PEFGGIAVTP GIYPPLQSAS VPSPHTYAPL ANWQMGRSPV VPGSYIPGSY TPMMLSSGMV  240
PLQGWSPYPA SVNPVASGGA QQTVQAGPLY GIGHHGSSAA IAYGSPYMPY SSSTGQSSNN  300
HQEHGFPERP GQPECQYYMR TGDCKFGATC KYNHPRDWSA AKSNYVFSPL CLPLRPVSIK  360
HLEYIYVLSG LIQ*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.8571e-134callus| leaf| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG172300.1.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
GenBankBT0664260.0BT066426.1 Zea mays full-length cDNA clone ZM_BFc0163G12 mRNA, complete cds.
GenBankBT0862410.0BT086241.1 Zea mays full-length cDNA clone ZM_BFc0136N19 mRNA, complete cds.
GenBankJX4284750.0JX428475.1 Zea mays subsp. mays clone pUT3071 C3H28 transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004967811.10.0zinc finger CCCH domain-containing protein 6
SwissprotQ5NAW20.0C3H6_ORYSJ; Zinc finger CCCH domain-containing protein 6
TrEMBLA0A3L6QXY70.0A0A3L6QXY7_PANMI; Zinc finger CCCH domain-containing protein 6-like
STRINGPavir.Eb00942.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27613889
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47850.31e-100C3H 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. Friedrichs G,Fikri M,Guo Y,Temps F
    Time-resolved cavity ringdown measurements and kinetic modeling of the pressure dependences of the recombination reactions of SiH2 with the alkenes C2H4, C3H6, and t-C4H8.
    J Phys Chem A, 2008. 112(25): p. 5636-46
    [PMID:18512897]
  3. Ning H,Gong C,Li Z,Li X
    Pressure-dependent kinetics of initial reactions in iso-octane pyrolysis.
    J Phys Chem A, 2015. 119(18): p. 4093-107
    [PMID:25868004]