PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Gh_A13G0524 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
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Family | MIKC_MADS | ||||||||
Protein Properties | Length: 234aa MW: 27790.5 Da PI: 8.0824 | ||||||||
Description | MIKC_MADS family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | SRF-TF | 84.8 | 5.2e-27 | 9 | 59 | 1 | 51 |
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++ rqvtfskRr+g+lKK +ELSvLCda++ +iifsstgk+ y++ Gh_A13G0524 9 KRIENQTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKMCQYCT 59 79**********************************************986 PP | |||||||
2 | K-box | 79.2 | 1e-26 | 71 | 170 | 1 | 99 |
K-box 1 yqkssgks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 yqk +g++ e+ + e+l++ela L+ke++ Lq + R++ Ged++s+ ++eL qLeq+Le+s++k+R++Knell +q+++l++ke++l+een+++ + Gh_A13G0524 71 YQKVTGTRiPEHDNREHLYNELAVLRKETRRLQLSMRRYTGEDMSSIPYEELDQLEQELERSVNKVRERKNELLQQQLDNLRRKERMLEEENNNMYRW 168 678888888888999******************************************************************************99887 PP K-box 98 le 99 ++ Gh_A13G0524 169 IQ 170 66 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50066 | 29.801 | 1 | 61 | IPR002100 | Transcription factor, MADS-box |
SMART | SM00432 | 2.0E-38 | 1 | 60 | IPR002100 | Transcription factor, MADS-box |
CDD | cd00265 | 4.38E-41 | 2 | 76 | No hit | No description |
SuperFamily | SSF55455 | 6.02E-31 | 2 | 80 | IPR002100 | Transcription factor, MADS-box |
PROSITE pattern | PS00350 | 0 | 3 | 57 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 4.1E-27 | 3 | 23 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF00319 | 1.6E-23 | 10 | 57 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 4.1E-27 | 23 | 38 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 4.1E-27 | 38 | 59 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF01486 | 4.9E-24 | 81 | 169 | IPR002487 | Transcription factor, K-box |
PROSITE profile | PS51297 | 16.03 | 85 | 175 | IPR002487 | Transcription factor, K-box |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0008360 | Biological Process | regulation of cell shape | ||||
GO:0019252 | Biological Process | starch biosynthetic process | ||||
GO:0043068 | Biological Process | positive regulation of programmed cell death | ||||
GO:0048316 | Biological Process | seed development | ||||
GO:0048481 | Biological Process | plant ovule development | ||||
GO:0080155 | Biological Process | regulation of double fertilization forming a zygote and endosperm | ||||
GO:2000029 | Biological Process | regulation of proanthocyanidin biosynthetic process | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0046983 | Molecular Function | protein dimerization activity |
Sequence ? help Back to Top |
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Protein Sequence Length: 234 aa Download sequence Send to blast |
MGRGKIAIKR IENQTTRQVT FSKRRAGLLK KTHELSVLCD AQIGLIIFSS TGKMCQYCTQ 60 PYRMEQIIER YQKVTGTRIP EHDNREHLYN ELAVLRKETR RLQLSMRRYT GEDMSSIPYE 120 ELDQLEQELE RSVNKVRERK NELLQQQLDN LRRKERMLEE ENNNMYRWIQ EHRAAIEYQQ 180 HGGLEAKPVE HHQQVLDEFP FYGEPSSVLQ LATIPQQFSY QLQLAQPNLQ DSNV |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5f28_A | 1e-18 | 1 | 71 | 1 | 69 | MEF2C |
5f28_B | 1e-18 | 1 | 71 | 1 | 69 | MEF2C |
5f28_C | 1e-18 | 1 | 71 | 1 | 69 | MEF2C |
5f28_D | 1e-18 | 1 | 71 | 1 | 69 | MEF2C |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Ghi.19228 | 0.0 | boll| ovule |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Expressed during seed development. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in buds, flowers and immature seeds, but not in roots, stems, leaves, seedlings or siliques valves. Expression in seed coat is confined to the endothelium layer. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor involved in the developmental regulation of the endothelium and in the accumulation of proanthocyanidins (PAs) or condensed tannins which give the seed its brown pigmentation after oxidation (PubMed:12368498, PubMed:16080001). Necessary for the normal activation of the BANYULS promoter in the endothelium body (PubMed:12368498). Is required, together with AGL11/STK for the maternal control of endothelium formation, which is essential for female gametophyte development and fertilization, and seed formation (PubMed:22176531). Interacts genetically with AGL1/SHP1 and AGL5/SHP2 in a partially antagonistic manner and represses AGL1/SHP1, AGL5/SHP2, and AGL8/FUL during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). Mediates the crosstalk between endothelium and nucellus to ensure proper seed formation. Functions redundantly with AGL63/GOA to repress nucellus growth and promote its degeneration. Represses the negative regulator of autophagy and programmed cell death HVA22D in the proximal nucellus (PubMed:27233529). Binds specifically to the CArG box DNA sequence 5'-CC (A/T)6 GG-3' (PubMed:16080001). {ECO:0000269|PubMed:12368498, ECO:0000269|PubMed:16080001, ECO:0000269|PubMed:22176531, ECO:0000269|PubMed:27233529, ECO:0000269|PubMed:27776173}. |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | HM236444 | 0.0 | HM236444.1 Gossypium hirsutum MADS28 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | NP_001313751.1 | 1e-174 | protein TRANSPARENT TESTA 16-like | ||||
Refseq | XP_016674742.1 | 1e-174 | PREDICTED: protein TRANSPARENT TESTA 16-like isoform X1 | ||||
Refseq | XP_016674743.1 | 1e-174 | PREDICTED: protein TRANSPARENT TESTA 16-like isoform X1 | ||||
Refseq | XP_016674744.1 | 1e-174 | PREDICTED: protein TRANSPARENT TESTA 16-like isoform X1 | ||||
Refseq | XP_017617341.1 | 1e-174 | PREDICTED: protein TRANSPARENT TESTA 16 isoform X1 | ||||
Refseq | XP_017617343.1 | 1e-174 | PREDICTED: protein TRANSPARENT TESTA 16 isoform X1 | ||||
Refseq | XP_017617344.1 | 1e-174 | PREDICTED: protein TRANSPARENT TESTA 16 isoform X1 | ||||
Swissprot | Q8RYD9 | 2e-93 | TT16_ARATH; Protein TRANSPARENT TESTA 16 | ||||
TrEMBL | A0A0B0PPB3 | 1e-173 | A0A0B0PPB3_GOSAR; Protein TRANSPARENT TESTA 16-like protein | ||||
TrEMBL | V9I2E6 | 1e-173 | V9I2E6_GOSHI; MADS28 | ||||
STRING | EOX99096 | 1e-160 | (Theobroma cacao) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM6506 | 25 | 43 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G23260.2 | 2e-89 | MIKC_MADS family protein |