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 | Pavir.9NG570100.1.p | ||||||||
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; Panicinae; Panicum
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Family | LBD | ||||||||
Protein Properties | Length: 283aa MW: 30617 Da PI: 11.3043 | ||||||||
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 | 59 | 159 | 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+ + Pavir.9NG570100.1.p 59 PCGACKFLRRKCVSGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLQIPAHKRLDAVVTICYEAQARLRDPVYGCVAHIFALQQQVVN 148 7***********************9989************************************************************** PP DUF260 90 lkaelallkee 100 l+ael +l+++ Pavir.9NG570100.1.p 149 LQAELTYLQAH 159 ******99876 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 23.046 | 58 | 160 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 2.0E-39 | 59 | 157 | 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: 283 aa Download sequence Send to blast |
MWVRETPRLA GARRVPRHCQ RAHAPRGRRH QHAWRRRRRR RRRGPSGSGS GGSGGGGGPC 60 GACKFLRRKC VSGCIFAPYF DSEQGAAHFA AVHKVFGASN VSKLLLQIPA HKRLDAVVTI 120 CYEAQARLRD PVYGCVAHIF ALQQQVVNLQ AELTYLQAHL ATLELPSPPP LPAPPQMPMP 180 GPFSIADLPS STSVPTTVDL SALFDPPPHA QPPQWAVQQQ QHHHQLRQPT PYGAPVRGGS 240 GMAETSGAGS GDLQALAREL VDRHRSGGVK LEHPPPPPPH SR* |
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-36 | 55 | 153 | 7 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 2e-36 | 55 | 153 | 7 | 104 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 28 | 40 | RHQHAWRRRRRRR |
2 | 34 | 42 | RRRRRRRRR |
3 | 35 | 42 | RRRRRRRR |
4 | 36 | 42 | RRRRRRR |
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 | Pavir.9NG570100.1.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 | BT036180 | 0.0 | BT036180.1 Zea mays full-length cDNA clone ZM_BFb0099M02 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025797026.1 | 1e-126 | LOB domain-containing protein 18-like | ||||
Swissprot | O22131 | 1e-70 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | A0A3L6TU89 | 1e-125 | A0A3L6TU89_PANMI; LOB domain-containing protein 30-like | ||||
STRING | Pavir.Ia03917.1.p | 1e-155 | (Panicum virgatum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP3346 | 37 | 82 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G45420.1 | 5e-69 | LOB domain-containing protein 18 |
Link Out ? help Back to Top | |
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Phytozome | Pavir.9NG570100.1.p |
Publications ? help Back to Top | |||
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