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.9NG152100.1.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: 750aa    MW: 79985 Da    PI: 6.9632
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG152100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.63.7e-07309329526
                          --SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                          +C++f++ G C++Gd C +aHg
  Pavir.9NG152100.1.p 309 PCPDFRK-GVCRRGDMCEYAHG 329
                          8******.*************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd002047.47E-753169No hitNo description
PROSITE profilePS5029715.51291166IPR020683Ankyrin repeat-containing domain
SMARTSM002480.2491121IPR002110Ankyrin repeat
SuperFamilySSF484033.73E-1391168IPR020683Ankyrin repeat-containing domain
Gene3DG3DSA:1.25.40.202.0E-1592170IPR020683Ankyrin repeat-containing domain
PfamPF136372.8E-892150No hitNo description
SMARTSM002480.49126158IPR002110Ankyrin repeat
PROSITE profilePS5008811.808126161IPR002110Ankyrin repeat
SMARTSM003561.1E-5304330IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.4E-4308331IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.375309331IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-4309329IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.9E-4337367IPR000571Zinc finger, CCCH-type
SMARTSM0035637339362IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 750 aa     Download sequence    Send to blast
MMNSMPISAS PAAGIDGGAV AAGTPRKNAT AAAAVAEMAR HLTVDTDDAF AGLLELAADD  60
DAEGLRRALE RAPPAAADEA GLWYGRRKVL EHRTPLMVAA TYGSLAALRL LVSLPSVDVN  120
RRSGTDGTTA LHCVASGGSR TVVEAVKLLL GAGADADATD DSGRRPADVI SVPPKMFDAK  180
FALQDLLGCP KPEHGMLRVV TRSTNSISSP VSSPTAEDAR SPSAAVMMTT KFADLPRVAT  240
SEKKEYPVDP SLPDIKNSIY ASDEFRMYSF KIRPCSRAYS HDWTECPFVH PGENARRRDP  300
RKYHYSCVPC PDFRKGVCRR GDMCEYAHGV FECWLHPAQY RTRLCKDGTS CNRRVCFFAH  360
TTDELRPLYV STGSAVPSPR ASATAAMEMA AAMGLMPGSP SSVSAVMSPF TPPMSPSGNG  420
MPPSLGWQQP NVPTLHLPGS SLQSSRLRTS LSARDMPADD YSLMQDLDSQ LMNDLCYSRL  480
SSSTGNHSAR TKSLNPSNLD DLFSAEMVSS PRYSNADQGA MFSPSHKAAI LNQFQQQQQA  540
LLSPINTGVY SPKAMDNQQL PSHSSLLQAS LGISSPGRMS PRCVESGSPM NSHLAAALAQ  600
REKQQQQTMR SLSSRDLGPS AARASALVGS PLSSSWSKWG SPSGTPDWGV NGEELGKLRR  660
SSSFELRFGG DDPDLSWVHT LVKESPPEKQ VTTAESINSV GPSPLMPPGM NNGEGSGLST  720
QLDGHDQAAV IGALLEQMQL DQQIGSLAT*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.95050.0callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG152100.1.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_025794600.10.0zinc finger CCCH domain-containing protein 24
SwissprotQ10EL10.0C3H24_ORYSJ; Zinc finger CCCH domain-containing protein 24
TrEMBLA0A2S3IJ350.0A0A2S3IJ35_9POAL; Uncharacterized protein
TrEMBLA0A2T7C2E70.0A0A2T7C2E7_9POAL; Uncharacterized protein
STRINGPavir.Ib04422.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP82337126
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G41900.10.0CCCH-type zinc finger protein with ARM repeat domain
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]