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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Potri.002G149000.1 | ||||||||
Common Name | POPTR_0002s15000g | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
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Family | LBD | ||||||||
Protein Properties | Length: 245aa MW: 24986.3 Da PI: 7.5021 | ||||||||
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 | 132.9 | 1.2e-41 | 33 | 133 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++p ++r+da+ +++yeA+ar+rdPvyG+v++i++lqqq+ +l Potri.002G149000.1 33 PCGACKFLRRKCVPGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLHIPAHKRPDAVVTICYEAQARLRDPVYGCVAHIFALQQQVVNL 123 7***********************9989*************************************************************** PP DUF260 91 kaelallkee 100 +ael++l+++ Potri.002G149000.1 124 QAELSYLQAH 133 *****99986 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 23.527 | 32 | 134 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.5E-40 | 33 | 131 | IPR004883 | Lateral organ boundaries, LOB |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0010089 | Biological Process | xylem development | ||||
GO:0010311 | Biological Process | lateral root formation | ||||
GO:0005634 | Cellular Component | nucleus |
Sequence ? help Back to Top |
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Protein Sequence Length: 245 aa Download sequence Send to blast |
MSTTTTNPIN SGVGGGSSGG GGAGGSSGGG GGPCGACKFL RRKCVPGCIF APYFDSEQGA 60 AHFAAVHKVF GASNVSKLLL HIPAHKRPDA VVTICYEAQA RLRDPVYGCV AHIFALQQQV 120 VNLQAELSYL QAHLAAMEVP SPPPPPPPAL VTSPPFSIAD LPSASSIPGA AYDLSSLFDP 180 MVQPSWSMQP RQLDPHQFGG SSGTSETSGG DLQALARELL HRRGSLPPGS VPCSDALASS 240 SISK* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 2e-39 | 23 | 134 | 1 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 2e-39 | 23 | 134 | 1 | 111 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Pth.11623 | 0.0 | bud |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: During lateral root formation, expressed in the lateral root primordia, and the developing, emerged, and mature lateral roots. {ECO:0000269|PubMed:19717544}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in roots, stems, leaves and flowers (PubMed:12068116, PubMed:24484953). Expressed in vascular tissues of hypocotyls, leaves, roots, developing floral organs and siliques (PubMed:19088331). {ECO:0000269|PubMed:12068116, ECO:0000269|PubMed:19088331, ECO:0000269|PubMed:24484953}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Involved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes (PubMed:19088331). Functions in the initiation and emergence of lateral roots, in conjunction with LBD16, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Transcriptional activator that directly regulates EXPA14, a gene encoding a cell wall-loosening factor that promotes lateral root emergence. Activates EXPA14 by directly binding to a specific region of its promoter (PubMed:22974309). Transcriptional activator that directly regulates EXPA17, a gene encoding a cell wall-loosening factor that promotes lateral root emergence (PubMed:23872272). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269|PubMed:19088331, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:22974309, ECO:0000269|PubMed:23749813, ECO:0000269|PubMed:23872272, ECO:0000269|PubMed:26059335}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00314 | DAP | Transfer from AT2G45420 | Download |
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Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Potri.002G149000.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:23749813}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002301295.2 | 1e-176 | LOB domain-containing protein 30 | ||||
Swissprot | O22131 | 1e-79 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | B9GPH4 | 1e-175 | B9GPH4_POPTR; LBD family protein | ||||
STRING | XP_006491458.1 | 1e-108 | (Citrus sinensis) | ||||
STRING | XP_006445237.1 | 1e-108 | (Citrus clementina) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF1771 | 34 | 93 | Representative plant | OGRP405 | 15 | 100 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G45420.1 | 8e-79 | LOB domain-containing protein 18 |
Link Out ? help Back to Top | |
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Phytozome | Potri.002G149000.1 |
Entrez Gene | 7461722 |
Publications ? help Back to Top | |||
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