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_009147316.1
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: 392aa    MW: 43379.7 Da    PI: 7.3943
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009147316.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH35.51.7e-114167127
                    --S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                    +++++C+++ rtG C++G++C+F+H+p
  XP_009147316.1 41 PGEPNCSYYIRTGLCRFGSTCRFNHPP 67
                    5789*********************97 PP
2zf-CCCH37.63.7e-1288112327
                     S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                     +++C ++++tGtCk+G +CkF+H++
  XP_009147316.1  88 QPECEYYLKTGTCKFGVTCKFHHPR 112
                     799********************96 PP
3zf-CCCH37.93e-12134158327
                     S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                     ++ C +f+rtG+Ck+G++CkF+H++
  XP_009147316.1 134 EVDCAYFLRTGHCKFGATCKFNHPQ 158
                     578********************97 PP
4zf-CCCH37.15.2e-12277303127
                     --S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                     +++++C+f+++tG Ck+G  CkF+H++
  XP_009147316.1 277 PGQPECQFYMKTGDCKFGTVCKFHHPR 303
                     5789*********************96 PP
5zf-CCCH34.82.7e-11323349127
                     --S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                     ++++lC f++r+ +Ck+G++CkF+H++
  XP_009147316.1 323 PGEPLCVFYSRYRICKFGPSCKFHHPM 349
                     589**********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.2E-44067IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.544068IPR000571Zinc finger, CCCH-type
PfamPF006424.4E-84267IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.13E-54568IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.9E-44666IPR000571Zinc finger, CCCH-type
SMARTSM003562.6E-585112IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.10885113IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-988112IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.92E-689114IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.7E-491112IPR000571Zinc finger, CCCH-type
SMARTSM003565.7E-6131158IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.99131159IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.84E-6134160IPR000571Zinc finger, CCCH-type
PfamPF006427.1E-10134158IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.4E-4137157IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-5276303IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.22276304IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-8278303IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.06E-6280305IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.1E-4282304IPR000571Zinc finger, CCCH-type
SMARTSM003567.1E-5322349IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.117322350IPR000571Zinc finger, CCCH-type
PfamPF006424.2E-8324349IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-5325350IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0017148Biological Processnegative regulation of translation
GO:0005829Cellular Componentcytosol
GO:0010313Molecular Functionphytochrome binding
GO:0046872Molecular Functionmetal ion binding
GO:0048027Molecular FunctionmRNA 5'-UTR binding
Sequence ? help Back to Top
Protein Sequence    Length: 392 aa     Download sequence    Send to blast
MDFNAGVPMS SLSPLMTQEA MWQMNLSQDE TMETGSYPER PGEPNCSYYI RTGLCRFGST  60
CRFNHPPDRE LVIATARMRG EYPERIGQPE CEYYLKTGTC KFGVTCKFHH PRNKAGIAGR  120
VSLNMLGYPL RSNEVDCAYF LRTGHCKFGA TCKFNHPQPQ PQPTTNLMVP TSGQQQSYPW  180
SSASFIPSPR WQDPSGYTPL LMPQGVVPVQ GWNPYTGQLG AVSPSGTGND HNSYRNMQQN  240
EAGSQSQGSV SGLNTASSVP LGGFYALPSE SVFPERPGQP ECQFYMKTGD CKFGTVCKFH  300
HPRDRQAPPP DCLLSPIGLP LRPGEPLCVF YSRYRICKFG PSCKFHHPME VFAYDNTASE  360
TDEVVEASGG HSRRVSVSET RQATTSGEDT TN
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.172200.0bud| leaf| root
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009147316.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0259660.0BT025966.1 Arabidopsis thaliana At3g02830 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009147316.10.0PREDICTED: zinc finger CCCH domain-containing protein 33
SwissprotQ8GXX70.0C3H33_ARATH; Zinc finger CCCH domain-containing protein 33
TrEMBLM4FHM60.0M4FHM6_BRARP; Uncharacterized protein
STRINGBra040604.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33892864
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.10.0zinc finger protein 1
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]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]