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 GSBRNA2T00035708001
Common NameGSBRNA2T00035708001
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: 1156aa    MW: 127266 Da    PI: 8.3287
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00035708001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.39.7e-0711311154225
                           -S---SGGGGTS--TTTTT-SS-S CS
              zf-CCCH    2 ktelCrffartGtCkyGdrCkFaH 25  
                           +++ C+f++++G C+ G+ C++ H
  GSBRNA2T00035708001 1131 GQRVCKFHRENGNCRKGAACTYLH 1154
                           6899******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.106.6E-103994IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579033.32E-94795IPR011011Zinc finger, FYVE/PHD-type
CDDcd155685.83E-195193No hitNo description
SMARTSM002498.3E-65197IPR001965Zinc finger, PHD-type
Gene3DG3DSA:1.10.245.101.8E-24237330IPR003121SWIB/MDM2 domain
SuperFamilySSF475922.11E-20246327IPR003121SWIB/MDM2 domain
SMARTSM001510.0049262327IPR019835SWIB domain
PfamPF022015.8E-13264322IPR003121SWIB/MDM2 domain
SMARTSM007192.9E-54383492IPR004343Plus-3 domain
PROSITE profilePS5136030.587383515IPR004343Plus-3 domain
SuperFamilySSF1590422.22E-35384512IPR004343Plus-3 domain
PfamPF031261.4E-24388490IPR004343Plus-3 domain
SuperFamilySSF552773.66E-19669736IPR003169GYF domain
PROSITE profilePS5082916.81683737IPR003169GYF domain
CDDcd000727.29E-19683740No hitNo description
Gene3DG3DSA:3.30.1490.409.4E-18684737IPR003169GYF domain
SMARTSM004441.8E-23684739IPR003169GYF domain
PfamPF022131.8E-14685726IPR003169GYF domain
PROSITE profilePS5010313.13111291155IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-411311154IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010964Biological Processregulation of chromatin silencing by small RNA
GO:0032776Biological ProcessDNA methylation on cytosine
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
GO:0042393Molecular Functionhistone binding
Sequence ? help Back to Top
Protein Sequence    Length: 1156 aa     Download sequence    Send to blast
MTETQEETVE GKAVRTKVAE ASEETETRSG VGGKRKRVRN TKTGKKKEED VCFICFDGGD  60
LVLCDRRGCP KAYHPSCVNQ DEDFFRSKGK WNCGNGVCIL FTLVIYSVFN IVTFLEIIMV  120
YLLFVYTLVS TINLTVSLLF LIPLTESAQL DFDDKTSWES LFKDYWIDLK TQLSISPEEL  180
DQAKSPHKGN KSHAGKQGTA REVDYVTDEG SDSDSSPKKK KTRSRSKSGS AEKNQSPANK  240
SSSGETWASK ELLDVVAHMR RGDKSFLPST EVHALLLDYI KKYNLRDPRR KSQVVCDSRL  300
KNLFGKSHVG HFEMLNILDT HFLDKEQQQA DNIQGSIVDT DPDYVDLDEN VDHPVKSGKD  360
KKRKTRKKGA RKGRQSNLDD FAAVDMHNIN LIYLRRSLVE DLLEDSTAFE EKVASAFVRL  420
RISGNQKQDL YRLVQVVGTS KAPEPYKVGK KTTDYVLEIL NLDKTEVISI DIISNQDFTE  480
DECNRLRQSI KCGLINRLTV GDIQEKAIAL QEVRVKNLLD AEILRFSHLR DRASDMGHRK  540
EYPYLLEEIP EIHADPKMDP DYESEDEDEK EEKEKEKSLR RRSSSFNRRG RDPISPRKGG  600
FDYLGSSDDK VSDSLWNSGR EREKDMQHYL GSEKPRTVSL PEPPPRSSRA VAPPELSPRI  660
APVISTPPPP VVPQPTPKSN ESEKMWHYKD PSGKVQGPFS MAQLRKWNNT GYFPAKLEIW  720
KANESSLDSV LLTDALAGLF QKQGQSVDNS YPKAYSGQSS QSEPNIGSSA RTAPSVLDVP  780
KNSQDTWSSG GSLPSPTPTQ MTTPTAKRRN FESRWSPTKP SAQSAVQSMS FPSAQSVPSQ  840
ASRTDIPVVV NSAGELQPGT HPIPTPDRAN VSVNHYGSSA PLPSPTPVGG MQSWGNMQTD  900
KFDSHGRGRG DAPFSSQNTS ASYGTTTPSA LTSQSQPGFP ASDPWRAPVP SQSNTQTQAP  960
AWGMNNSQNS GQPQAPTNQN SSWGQATVVN PNMGWAGPPQ AGMSVNWAAS SVPPTGQGMP  1020
NPGWGGPAQV QQPQAYSANS GWGVTGQTQS QAQVQAPGIS TSSGWMQTGQ GMQSGNSNQN  1080
WGTQNQSAMQ SGGSGGNQTG YWGNQQNQNG DSGYGWNRQS SGSGGHNNFK GQRVCKFHRE  1140
NGNCRKGAAC TYLHN*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.87891e-175microspore| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, mostly in the vasculature and shoot apices of young seedlings. {ECO:0000269|PubMed:22940247}.
Functional Description ? help Back to Top
Source Description
UniProtPlays a central role in integrating RNA silencing and chromatin signals in 21 nt siRNA-dependent DNA methylation on cytosine pathway leading to transcriptional gene silencing of specific sequences. Involved in a chromatin-based RNA silencing pathway that encompasses both post-transcriptional gene silencing (PTGS) (e.g. RDR1, RDR6 and AGO2) and transcriptional gene silencing (TGS) (e.g. siRNA-dependent DNA methylation and histone H3) components. Mediates siRNA accumulation at specific chromatin loci. Binds H3K4me0 through its PHD to enforce low levels of H3K4 methylation and gene silencing at a subset of genomic loci. {ECO:0000269|PubMed:22940247}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00035708001
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_013641984.10.0zinc finger CCCH domain-containing protein 19-like isoform X2
SwissprotQ9SIV50.0C3H19_ARATH; Zinc finger CCCH domain-containing protein 19
TrEMBLA0A078GJQ90.0A0A078GJQ9_BRANA; BnaC09g09020D protein
STRINGBo9g024110.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM54221620
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G16485.10.0nucleic acid binding;zinc ion binding;DNA binding
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]