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 | Gorai.004G161100.1 | ||||||||
Common Name | B456_004G161100, LOC105791636 | ||||||||
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 | LBD | ||||||||
Protein Properties | Length: 255aa MW: 26015.3 Da PI: 7.769 | ||||||||
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 | 128.3 | 3.5e-40 | 35 | 135 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++p ++r da+ ++++eA+ar+rdPvyG+v++i++lqqq+ +l Gorai.004G161100.1 35 PCGACKFLRRKCVPGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLHIPVHKRLDAVVTICFEAQARLRDPVYGCVAHIFALQQQVVNL 125 7***********************9989*************************************************************** PP DUF260 91 kaelallkee 100 +ael++l+++ Gorai.004G161100.1 126 QAELSYLQAH 135 *****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 | 22.791 | 34 | 136 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 3.3E-39 | 35 | 133 | 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: 255 aa Download sequence Send to blast |
MSSNPSNSGG SVGGGSGSCS GSAGGSGGGG SGGGPCGACK FLRRKCVPGC IFAPYFDSEQ 60 GAAHFAAVHK VFGASNVSKL LLHIPVHKRL DAVVTICFEA QARLRDPVYG CVAHIFALQQ 120 QVVNLQAELS YLQAHLTTLE LPSPPPPPPP PSQTLVAAPP LSISDLPSAS SVPATYDLSS 180 LFDPMVAQTS WAMQQRQIDP RQYGGTGSAS STGSGDLQAL ARELLHRQGS PHLPCTDASV 240 SPAPSPSRSL SKGD* |
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-37 | 32 | 136 | 8 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 2e-37 | 32 | 136 | 8 | 111 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
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 |
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 | JX586942 | 6e-41 | JX586942.1 Gossypium hirsutum clone NBRI_GE20894 microsatellite sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_012475250.1 | 0.0 | PREDICTED: LOB domain-containing protein 18 | ||||
Swissprot | O22131 | 5e-88 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | A0A0D2MZ41 | 0.0 | A0A0D2MZ41_GOSRA; Uncharacterized protein | ||||
STRING | Gorai.004G161100.1 | 0.0 | (Gossypium raimondii) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM108 | 28 | 359 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G45420.1 | 3e-85 | LOB domain-containing protein 18 |
Link Out ? help Back to Top | |
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Phytozome | Gorai.004G161100.1 |
Entrez Gene | 105791636 |