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 Cagra.0897s0006.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C3H
Protein Properties Length: 367aa    MW: 40406.7 Da    PI: 7.227
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0897s0006.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.76e-11127150326
                          S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                           e C+ f+r+G C++Gd C FaHg
  Cagra.0897s0006.1.p 127 GEVCPEFRRGGDCSRGDDCEFAHG 150
                          689********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003568.4E-6124151IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.535124152IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.66E-6124154IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.9E-6128152IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-8128150IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010187Biological Processnegative regulation of seed germination
GO:0005634Cellular Componentnucleus
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 367 aa     Download sequence    Send to blast
MDVVCTEHQM RKPTVEIPPR KLLLSAKSFP ASDSSSPRSP RKHNWNKSNK ITSEHEEDED  60
NNNNREIKEY CYDSDSDDPY ASDHFRMFEF KIRRCTRSRS HDWTDCPFAH PGEKARRRDP  120
RRFQYSGEVC PEFRRGGDCS RGDDCEFAHG VFECWLHPIR YRTEACKDGG SGSPSPAAKN  180
PCCLFCSSSP TSTLLGNLSH LSRSPSLSPP MSPAHKAAAF SRLRNRAASA VSAAAAAGSV  240
NYKDVLSELV NSLDSMSLAE ALQVGTSSPV TTPVSAAAAA FASSCGLSNQ RLHLQQQQPS  300
SPLQFSLSPS TPSYLTTSSP ANFFGDEFTP RRRQMNNDFT TVRDKTSFED GSCGDPDLGW  360
VNDLLT*
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269|PubMed:18487351}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0897s0006.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0030270.0AC003027.1 Arabidopsis thaliana chromosome I BAC F21M11 genomic sequence, complete sequence.
GenBankAK1172190.0AK117219.1 Arabidopsis thaliana At1g03790 mRNA for unknown protein, complete cds, clone: RAFL16-76-P06.
GenBankBT0053420.0BT005342.1 Arabidopsis thaliana At1g03790 mRNA, complete cds.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010457395.10.0PREDICTED: zinc finger CCCH domain-containing protein 2
SwissprotQ9ZWA10.0C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBLR0IK670.0R0IK67_9BRAS; Uncharacterized protein
STRINGCagra.0897s0006.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM29872766
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03790.11e-139C3H family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Chang G, et al.
    AFP2 as the novel regulator breaks high-temperature-induced seeds secondary dormancy through ABI5 and SOM in Arabidopsis thaliana.
    Biochem. Biophys. Res. Commun., 2018. 501(1): p. 232-238
    [PMID:29723526]