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 XP_009129667.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C3H
Protein Properties Length: 438aa    MW: 46428.9 Da    PI: 8.16
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009129667.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.61.8e-123964227
                    -S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                    +++ C +++rtG C yG+rC+F+H++
  XP_009129667.1 39 DEPDCIYYLRTGACGYGSRCRFNHPR 64
                    6899********************96 PP
2zf-CCCH38.52e-1288113227
                     -S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                     +++ C++f+rtGtCk+G++Ck++H++
  XP_009129667.1  88 GQPVCQHFMRTGTCKFGATCKYHHPR 113
                     5789********************96 PP
3zf-CCCH37.63.7e-12134158226
                     -S---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                     ++++C++++rtG+Ck+G +C+F+H+
  XP_009129667.1 134 GEKECSYYLRTGQCKFGLTCRFNHP 158
                     7899********************9 PP
4zf-CCCH406.6e-13284308226
                     -S---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                     ++++C++f+rtG Ck+G++C+++H+
  XP_009129667.1 284 DQPECQYFMRTGDCKFGSSCRYHHP 308
                     689*********************9 PP
5zf-CCCH32.71.3e-10330355227
                     -S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                     + + C +fa+ G+Ck+G+ CkF H++
  XP_009129667.1 330 GVAQCTHFAQHGICKFGPACKFDHSM 355
                     6788********************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.4463765IPR000571Zinc finger, CCCH-type
SMARTSM003565.5E-53764IPR000571Zinc finger, CCCH-type
PfamPF006425.5E-103964IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.66E-64165IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.0E-54364IPR000571Zinc finger, CCCH-type
SMARTSM003564.6E-686113IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.9286114IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.96E-687113IPR000571Zinc finger, CCCH-type
PfamPF006425.2E-1088113IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.9E-591113IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-5132159IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.54132160IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.98E-6134162IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-9134158IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.6E-4138157IPR000571Zinc finger, CCCH-type
SMARTSM003564.8E-6282309IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.155282310IPR000571Zinc finger, CCCH-type
PfamPF006423.3E-10284308IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.14E-6285311IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-4288308IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.723328356IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-4328355IPR000571Zinc finger, CCCH-type
PfamPF006423.2E-8330354IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.18E-5331356IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.5E-4334355IPR000571Zinc 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: 438 aa     Download sequence    Send to blast
MERYGRSGEE GSRSDPSGQT GVQASVWRGG GESYPERPDE PDCIYYLRTG ACGYGSRCRF  60
NHPRDRGAVV GGVRGGGGGD GALPERMGQP VCQHFMRTGT CKFGATCKYH HPRQGGGSVA  120
PVSLSYLGYP LRPGEKECSY YLRTGQCKFG LTCRFNHPVP QQQQQPQPQP QLHTIYPTLQ  180
SQPSQQYGLV LARPSLLPGS YLPSHYGPPM VLPPGMVTYP GWNPYQPSLT AMPSPGTQPS  240
IGPSSVYGMA PLSPSGTAYT GTYQSGGPSS LTISKEEPFP QRPDQPECQY FMRTGDCKFG  300
SSCRYHHPLD AAQPKTGVLF SSIGLPLRPG VAQCTHFAQH GICKFGPACK FDHSMSSSLS  360
YSPSASSLTD MPVAPYPIGS SSLSGATAPV SLSNEPTTEA VTAVSSPMVS GQEPAETSGD  420
SASVSGSIEA KTSSSSSK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.125000.0bud| flower| leaf
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009129667.1
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_009129667.10.0PREDICTED: zinc finger CCCH domain-containing protein 34
SwissprotQ9SQU40.0C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBLM4DW560.0M4DW56_BRARP; Uncharacterized protein
STRINGBra020750.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17792786
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G06410.10.0C3H family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]