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 | Seita.9G539400.1.p | ||||||||
Common Name | LOC101757043, SETIT_040019mg | ||||||||
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; Panicodae; Paniceae; Cenchrinae; Setaria
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Family | LBD | ||||||||
Protein Properties | Length: 239aa MW: 25037.7 Da PI: 6.0065 | ||||||||
Description | LBD 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 | DUF260 | 127.7 | 5.2e-40 | 7 | 107 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrrkC+++Cv+apyf++eq +++fa++hk+FGasnv+kll++lp +r++a+ ++ yeA+ar+rdP+yG+v++i++lqqq+++l Seita.9G539400.1.p 7 PCGACKFLRRKCVRGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLAHLPLADRPEAAVTISYEAQARLRDPIYGCVAHIFALQQQVMTL 97 7*************************89*************************************************************** PP DUF260 91 kaelallkee 100 +a+la+lk++ Seita.9G539400.1.p 98 QAQLASLKAQ 107 *****99987 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.574 | 6 | 108 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 5.9E-38 | 7 | 105 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 239 aa Download sequence Send to blast |
MTGFGSPCGA CKFLRRKCVR GCVFAPYFCH EQGAAHFAAI HKVFGASNVS KLLAHLPLAD 60 RPEAAVTISY EAQARLRDPI YGCVAHIFAL QQQVMTLQAQ LASLKAQAAQ GQGVHDDAKG 120 GYMGSAAEQL GYGYPWCNGN GGAGAAGGPS AQPSAYSNGG HESLTALLGS DCYMQQSLYH 180 AFEQSGADDD DGRQAAAFEA AADSSSFGAE ESGWRSSSGY QDCEDLQSVA YAYLNHRS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 9e-35 | 3 | 101 | 7 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 9e-35 | 3 | 101 | 7 | 104 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615, ECO:0000269|PubMed:21806801}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Seita.9G539400.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | EF051732 | 0.0 | EF051732.1 Zea mays rootless concerning crown and seminal lateral roots (rtcs) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_004985692.1 | 1e-174 | LOB domain-containing protein 16 | ||||
Swissprot | Q5UG13 | 1e-112 | LBD_ORYSJ; LOB domain-containing protein CRL1 | ||||
TrEMBL | K4AM82 | 1e-173 | K4AM82_SETIT; Uncharacterized protein | ||||
STRING | Si040019m | 1e-174 | (Setaria italica) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP2501 | 38 | 93 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G42440.1 | 2e-56 | LBD family protein |
Link Out ? help Back to Top | |
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Phytozome | Seita.9G539400.1.p |
Entrez Gene | 101757043 |
Publications ? help Back to Top | |||
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