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 | Glyma.03G023000.1.p | ||||||||
Common Name | GLYMA_03G023000, LOC100779541 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
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Family | LBD | ||||||||
Protein Properties | Length: 252aa MW: 25966.3 Da PI: 8.0046 | ||||||||
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 | 126.5 | 1.3e-39 | 34 | 134 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+++C++apyf +eq + +fa+vhk+FGasnv+kll ++p +r da+ +++yeA+ar+rdPvyG+v++i++lqqq+ + Glyma.03G023000.1.p 34 PCGACKFLRRKCVPGCIFAPYFDSEQgATHFAAVHKVFGASNVSKLLLNIPVYKRLDAVVTICYEAQARLRDPVYGCVAHIFALQQQVVS 123 7***********************9989************************************************************** PP DUF260 90 lkaelallkee 100 l+ael++l+ + Glyma.03G023000.1.p 124 LQAELSYLQGH 134 ******99865 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.923 | 33 | 135 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 2.9E-39 | 34 | 132 | 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: 252 aa Download sequence Send to blast |
MSINSSCSIS GGSSSGGNNN GAGGSGGNNG GGSPCGACKF LRRKCVPGCI FAPYFDSEQG 60 ATHFAAVHKV FGASNVSKLL LNIPVYKRLD AVVTICYEAQ ARLRDPVYGC VAHIFALQQQ 120 VVSLQAELSY LQGHLATLEL PQPPPPPPPP SSPQATTMAP PVISIAELPS TVPATYDLSS 180 LFDPMAQSPS WAVQPRPIES RQYVGSGPSG PSATSASGGD LQALARELLH RHGSAPVVAC 240 SNPSYSHPIS K* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 7e-38 | 30 | 129 | 7 | 105 | LOB family transfactor Ramosa2.1 |
5ly0_B | 7e-38 | 30 | 129 | 7 | 105 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Gma.62714 | 1e-155 | root |
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 |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Glyma.03G023000.1.p |
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 -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AC235410 | 0.0 | AC235410.1 Glycine max strain Williams 82 clone GM_WBb0128C24, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_003521944.1 | 0.0 | LOB domain-containing protein 18 | ||||
Swissprot | O22131 | 1e-78 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | I1JKK9 | 0.0 | I1JKK9_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA03G02620.1 | 0.0 | (Glycine max) |
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 | 2e-76 | LOB domain-containing protein 18 |
Link Out ? help Back to Top | |
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Phytozome | Glyma.03G023000.1.p |
Entrez Gene | 100779541 |
Publications ? help Back to Top | |||
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