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 LOC_Os01g15460.2
Common NameLOC4326236, Os01g0258700, P0462H08.27-1, P0462H08.27-2
Organism
Oryza sativa subsp. japonica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family C3H
Protein Properties Length: 477aa    MW: 49834.8 Da    PI: 7.597
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g15460.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH344.9e-116086127
                      --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                      +++e C +++rtG C +GdrC+++H++
  LOC_Os01g15460.2 60 PGEEDCVYYLRTGACGFGDRCRYNHPR 86
                      5899*********************96 PP
2zf-CCCH37.83.1e-12111135327
                       S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                       +++C ++++tGtCk+G +Ck++H++
  LOC_Os01g15460.2 111 QPICEYYMKTGTCKFGTNCKYHHPK 135
                       799********************96 PP
3zf-CCCH38.81.6e-12156180327
                       S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                       +++C+++++tG+Ck+G +CkF+H++
  LOC_Os01g15460.2 156 EKECSYYMKTGQCKFGTTCKFHHPE 180
                       689********************96 PP
4zf-CCCH38.32.2e-12308334127
                       --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                       ++++ C++++rtG Ck+G++Ck++H++
  LOC_Os01g15460.2 308 PGQPDCQYYMRTGDCKFGATCKYHHPR 334
                       5789*********************96 PP
5zf-CCCH322.2e-10357380427
                       ---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                        +C ++a++G+C+yG  Ck+ H++
  LOC_Os01g15460.2 357 QPCAYYAQNGYCRYGVACKYDHPM 380
                       69********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003569.0E-75986IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.545987IPR000571Zinc finger, CCCH-type
PfamPF006424.1E-86186IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.45E-66287IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.9E-56586IPR000571Zinc finger, CCCH-type
SMARTSM003562.2E-6108135IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.788108136IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-9111135IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.76E-7111137IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.0E-5113137IPR000571Zinc finger, CCCH-type
SMARTSM003568.9E-6153180IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.742153181IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.23E-6154180IPR000571Zinc finger, CCCH-type
PfamPF006428.9E-10156180IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-4159179IPR000571Zinc finger, CCCH-type
SMARTSM003562.2E-6307334IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.497307335IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-9309334IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.09E-5312335IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.8E-5313336IPR000571Zinc finger, CCCH-type
SMARTSM003562.0E-6353380IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.892353381IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.5E-6354383IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.9E-5357378IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-8357380IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0025281anatomypollen
PO:0001015developmental stageK second mitotic division stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 477 aa     Download sequence    Send to blast
MEQPHAAAAA AGGGEGEGGA SPDTGLEGPM WRMGLGGGGG GGGGGGGGDG DAAGRLPERP  60
GEEDCVYYLR TGACGFGDRC RYNHPRDRGG TEFGGGARNA AALDYPERAG QPICEYYMKT  120
GTCKFGTNCK YHHPKQDGAV LPVMLNNSGF PIRLGEKECS YYMKTGQCKF GTTCKFHHPE  180
FGGVPMTPGI YPPLQSPSIA SPHPYASLAN WQMGRPPVVP GSYIPGSYTP MMLSSGMIPL  240
QGWSPYPASV NPVVSGGAQQ NVQAGPVYGM GHHGSSSTIA YGGPYVPYAS STGQSSNNQQ  300
EHGFPERPGQ PDCQYYMRTG DCKFGATCKY HHPRELSAPK SGYMVNSLCL PLRPGAQPCA  360
YYAQNGYCRY GVACKYDHPM GTLGYSPSAL PLSDMPIAPY PIGFSIATLA PSSPSPDLRP  420
EYISTKDQSV NQVTSPVAAS EPVGSILPKG VFPADTMMRA QTNTTSGGSS SPGGGR*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.99310.0callus| flower| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379882960.0
Expression AtlasQ5NAW2-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g15460.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g15460
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1119030.0AK111903.1 Oryza sativa Japonica Group cDNA clone:J023093O12, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015651248.10.0zinc finger CCCH domain-containing protein 6
SwissprotQ5NAW20.0C3H6_ORYSJ; Zinc finger CCCH domain-containing protein 6
TrEMBLA0A0D9Y6A40.0A0A0D9Y6A4_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0MU640.0A0A0E0MU64_ORYRU; Uncharacterized protein
STRINGOGLUM01G11390.10.0(Oryza glumipatula)
STRINGORUFI01G10900.10.0(Oryza rufipogon)
STRINGOS01T0258700-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47850.31e-125C3H 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. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]
  3. 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]
  4. 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]