PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.006G240700.5.p
Common NameSb06g030670, SORBIDRAFT_06g030670
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family AP2
Protein Properties Length: 316aa    MW: 33245.9 Da    PI: 8.5058
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G240700.5.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP245.81.5e-142878155
                   AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55
                          s+++GV+ +k  grW+A+   +     +k+++lg f+t+eeAa+a+++a+ k +g
  Sobic.006G240700.5.p 28 SKFRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEEEAARAYDRAAIKCNG 78
                          79********.7******5553..2.26**********************99776 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.48E-252888No hitNo description
SuperFamilySSF541713.07E-182888IPR016177DNA-binding domain
PfamPF008471.8E-102878IPR001471AP2/ERF domain
PROSITE profilePS5103216.0672986IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.0E-172986IPR001471AP2/ERF domain
SMARTSM003803.3E-332992IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 316 aa     Download sequence    Send to blast
MKQMGHLSKE EFVHVLRRQS TGFPRGSSKF RGVTLHKCGR WEARMGQFLG KKYVYLGLFD  60
TEEEAARAYD RAAIKCNGKD AVTNFDPSIY AEELEPAAST GGGSGGGDDE HNLDLSLGSS  120
AGNKRGSLDG GGGGDDETSD QRVPMAFDID WQTAAPRSTK AKQACHVSTT GWQLDASSKQ  180
PQMLPPPLPP PPALQVAHHL PLPFSPRHPQ FLSNGDPGTA GGLSLAIGGA GGGGGGGHWT  240
PQLQHQQQHH QQRLHGGVWA NGGGTSWPPP PHPPPPTTAA TAAAASSRFP PYVVTTQGPA  300
GWVQKNGFHS LARPT*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In developing panicles, highly expressed in the spikelet abscission zone (AZ) and the inner floral organs of 2 mm long spikelets. Later present at weak levels in the apiculus as well as in the palea and lemma to progressively fades out in 8 mm long spikelets. {ECO:0000269|PubMed:22408071}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, leaves, stems, nodes, sheaths, panicles and young spikelets. Accumulates in the spikelet abscission zone (AZ) via a positive regulation by the transcription factor SH4. {ECO:0000269|PubMed:22408071}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor (PubMed:22408071). Involved in spikelet transition and development (PubMed:22408071). Prevents lemma and palea elongation as well as grain growth (PubMed:22408071). Required for seed shattering through specifying abscission zone (AZ) development (PubMed:22408071). {ECO:0000269|PubMed:22408071}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G240700.5.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
GenBankBT0561880.0BT056188.1 Zea mays full-length cDNA clone ZM_BFb0070P06 mRNA, complete cds.
GenBankBT0608900.0BT060890.1 Zea mays full-length cDNA clone ZM_BFb0066G16 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021319463.10.0AP2-like ethylene-responsive transcription factor TOE3 isoform X2
SwissprotB8AVJ91e-114APL25_ORYSI; APETALA2-like protein 5
TrEMBLA0A1Z5RGF50.0A0A1Z5RGF5_SORBI; Uncharacterized protein
STRINGSb06g030670.11e-149(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36920.24e-54AP2 family protein
Publications ? help Back to Top
  1. Zhou Y, et al.
    Genetic control of seed shattering in rice by the APETALA2 transcription factor shattering abortion1.
    Plant Cell, 2012. 24(3): p. 1034-48
    [PMID:22408071]