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 GSBRNA2T00102078001
Common NameGSBRNA2T00102078001
Organism
Brassica napus
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: 315aa    MW: 34555.6 Da    PI: 8.2621
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00102078001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH47.23.5e-15228252226
                          -S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                          ktelC+ +++tGtC+yGd C+FaHg
  GSBRNA2T00102078001 228 KTELCNKWQETGTCPYGDHCQFAHG 252
                          9***********************8 PP
2zf-CCCH21.24.9e-07265290126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ykte Cr  +++ +C+yG rC+F H+
  GSBRNA2T00102078001 265 YKTEVCRMVLAGDICPYGHRCHFRHS 290
                          9**********55**********998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.0E-18221259IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-11223258IPR000571Zinc finger, CCCH-type
SMARTSM003563.9E-9226253IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.23226254IPR000571Zinc finger, CCCH-type
PfamPF006423.2E-12228252IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-9260295IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.0E-12260293IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-5264291IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.272264292IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 315 aa     Download sequence    Send to blast
MENETAPLSY SGTSAVGIVN SHGEPSQLYH SSRSVMQQRQ DMVNREALCY TRLHEASLEA  60
EVLRLENTEL RSMNLHLKKE LDQLIRSSIQ NRFGYDRVPF RMLSNLSIGG GNNRGAEDAE  120
NQNRAVNRDD VSDESPTSVI ASEDLNRSSL PKSISVRSSG YSKSSQGGGG GGGGAAAAAQ  180
CGKSRGAVAK PGACGQQLST TQRVYVRGGK KEEEEEIEVE VYNQGMTKTE LCNKWQETGT  240
CPYGDHCQFA HGIKELRPVI RHPRYKTEVC RMVLAGDICP YGHRCHFRHS LSEQEKLMAA  300
GCKPNNKSSF KLVK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A1e-22228293570Butyrate response factor 2
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00383ampDAPTransfer from AT1G68200Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00102078001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894890.0AC189489.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB084K02, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013652283.10.0zinc finger CCCH domain-containing protein 15-like
SwissprotQ9C9F51e-149C3H15_ARATH; Zinc finger CCCH domain-containing protein 15
TrEMBLA0A397YQ200.0A0A397YQ20_BRACM; Uncharacterized protein
STRINGBra004288.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72872339
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68200.11e-140C3H family protein
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]