PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009124921.1
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: 402aa    MW: 42963.3 Da    PI: 8.0447
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009124921.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH37.92.9e-124771327
                    S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH  3 telCrffartGtCkyGdrCkFaHgp 27
                    ++ C +++rtG C yG+rC+F+H++
  XP_009124921.1 47 EPDCIYYLRTGVCGYGSRCRFNHPR 71
                    799********************96 PP
2zf-CCCH36.67.8e-1290114327
                     S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                     ++ C++f+rtGtC++G++Ck++H++
  XP_009124921.1  90 HPVCQHFMRTGTCQFGASCKYHHPR 114
                     789********************96 PP
3zf-CCCH39.69e-13136159326
                     S---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                     +++C++++rtG+Ck+G +C+F+H+
  XP_009124921.1 136 EKECSYYMRTGQCKFGLTCRFNHP 159
                     689********************9 PP
4zf-CCCH39.97e-13289314227
                     -S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                     ++++C++f+rtG Ck+G++C+++H+p
  XP_009124921.1 289 DQPECQYFMRTGDCKFGSSCRYHHPP 314
                     689*********************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.7424472IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-44471IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-94771IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-64972IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.6E-55071IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.23487115IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-587114IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.09E-688114IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-989114IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.7E-592114IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.779133161IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.94E-6133160IPR000571Zinc finger, CCCH-type
SMARTSM003562.2E-5133160IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-10136159IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.0E-4139158IPR000571Zinc finger, CCCH-type
SMARTSM003566.8E-6287314IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.042287315IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-10289314IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.11E-6290314IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.1E-4293312IPR000571Zinc finger, CCCH-type
SMARTSM00356100335354IPR000571Zinc finger, CCCH-type
PROSITE profilePS501037.272335355IPR000571Zinc 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: 402 aa     Download sequence    Send to blast
MDRYGRAGEE GSRSDPSIQW TSHGVETSMG RLALGGGGES YPERSDEPDC IYYLRTGVCG  60
YGSRCRFNHP RNRGAVIGGG DGVLPERMGH PVCQHFMRTG TCQFGASCKY HHPRQGGGSV  120
APVSLSYLGY PLRLGEKECS YYMRTGQCKF GLTCRFNHPV PLQPQQQQPQ PQLQTIYPTL  180
QSQPMPSSQQ YGLVLSRPSL LPASYLPSPY GGPPPMVMPP GMVTYPSWNP YQASLTAMPS  240
PGTQPSIGSS SVYGMASLSP SGPAYTGTYQ SGGPSLTAST EQSFPQRPDQ PECQYFMRTG  300
DCKFGSSCRY HHPPLDALLQ PKTGVLLNSI GLPLRPGVAQ CTHFAQHGIC KFGPASPISS  360
SNEPTTEAVT AVVSSPMVSG LSQQEAAGTS CDSAIEAKAS SS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.260770.0flower
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009124921.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2303121e-122AK230312.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL24-11-O09.
GenBankAK2304381e-122AK230438.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL25-43-G06.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018510110.10.0PREDICTED: zinc finger CCCH domain-containing protein 34-like isoform X2
SwissprotQ9SQU40.0C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBLM4FGJ20.0M4FGJ2_BRARP; Uncharacterized protein
STRINGBra040220.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G06410.11e-171C3H 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]