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.9KG039100.1.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: 716aa    MW: 76542.2 Da    PI: 6.7478
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG039100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.73.5e-07274294526
                          --SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                          +C++f++ G C++Gd C +aHg
  Pavir.9KG039100.1.p 274 PCPDFRK-GVCRRGDMCEYAHG 294
                          8******.*************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd002041.04E-753166No hitNo description
SMARTSM002480.2491121IPR002110Ankyrin repeat
PROSITE profilePS5029716.38891166IPR020683Ankyrin repeat-containing domain
SuperFamilySSF484033.04E-1491169IPR020683Ankyrin repeat-containing domain
PfamPF127961.6E-991160IPR020683Ankyrin repeat-containing domain
Gene3DG3DSA:1.25.40.203.4E-1692170IPR020683Ankyrin repeat-containing domain
SMARTSM002480.048126158IPR002110Ankyrin repeat
PROSITE profilePS5008812.689126161IPR002110Ankyrin repeat
SMARTSM003561.1E-5269295IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-4273296IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.375274296IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-4274294IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.7E-4302332IPR000571Zinc finger, CCCH-type
SMARTSM0035637304327IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 716 aa     Download sequence    Send to blast
MMNSMPISSS PAPGVDGGAV AAGTPRMNAT AAAAVAEMAR HLTVDTDDAF AGLLELAADD  60
DAEGLRRALE RAPPAAADEA GLWYGRRKVL EHRTPLMVAA TYGSLAALRL LVSLPSVDVN  120
RRSGTDGTTA LHCAASGGSR TAVEAIKLLL GAGADADATD DSGRRPADMI SVPPKMFDAK  180
FALQDLLGCP KPEHGMLRVV TRVATSEKKE YPVDPSLPDI KNSIYASDEF RMYSFKIRPC  240
SRAYSHDWTE CPFVHPGENA RRRDPRKYHY SCVPCPDFRK GVCRRGDMCE YAHGVFECWL  300
HPAQYRTRLC KDGTSCNRRV CFFAHTTDEL RPLYVSTGSA VPSPRASATA AMEMAAAMGL  360
MPGSPSSVSA VMSPFTPPMS PSGNGMPPSL GWQQPNVPTL HLPGSSLQSS RLRTSLSARD  420
MPADDYSLMQ DLDSQLMNDL CYSRLSSSTG NHSARTKSLN PSNLDDLFSA EMVSSPRYSN  480
ADQGAMFSPS HKAAILNQFQ QQQQALLSPI NTGVYSPKAM DNQQLPSHSS LLQASLGISS  540
PGLMSPRCVE SGSPMNSHLA AALVQREKQQ QQQTMRSLSS RDLGPSAARA SALVGSPLSS  600
SWSKWGSPSG TPDWGVDGEE LGKLRRSSSF ELRSGGDDPD LSWVHTLVKE SPPEKQVTMA  660
ESINSVGPSQ LMPPGMNNGE GSGLSTQLDG HDQAAVIGAL LEQMQLDRQV GSLAT*
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.9KG039100.1.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
GenBankBT0619330.0BT061933.1 Zea mays full-length cDNA clone ZM_BFb0199C03 mRNA, complete cds.
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
TrEMBLA0A3L6S7510.0A0A3L6S751_PANMI; Zinc finger CCCH domain-containing protein 24
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]