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 | GSVIVT01027621001 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
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Family | LBD | ||||||||
Protein Properties | Length: 265aa MW: 28194.3 Da PI: 8.0307 | ||||||||
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 | 127.6 | 5.8e-40 | 42 | 142 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +C aCk+lrrkC+ +C++apyf eq +++fa+vhk+FGasnv+kll ++p ++r da+ +++yeA+ar+rdPvyG+v++i++lqqq+ +l+ GSVIVT01027621001 42 PCGACKFLRRKCVVGCIFAPYFDPEQgAAHFAAVHKVFGASNVSKLLGHIPVHKRLDAVVTICYEAQARLRDPVYGCVAHIFALQQQVVNLQ 133 7*********************666659**************************************************************** PP DUF260 92 aelallkee 100 ael++l+++ GSVIVT01027621001 134 AELSYLQAH 142 ****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 | 22.734 | 41 | 143 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 2.0E-39 | 42 | 140 | 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: 265 aa Download sequence Send to blast |
MDFATFVINY IKDKCDFSYL FTKRDATPHS KLTSGGGGGG GPCGACKFLR RKCVVGCIFA 60 PYFDPEQGAA HFAAVHKVFG ASNVSKLLGH IPVHKRLDAV VTICYEAQAR LRDPVYGCVA 120 HIFALQQQVV NLQAELSYLQ AHLATLELPS PPPPPPPPPP VMVTPPSLSI SDLPSASSMP 180 PTYDLSSLFD PMVQPSSWPM QQHRQIDPRQ FGGSRGPTDL PSTAGGSGGG DLQALARELL 240 HRHSSALGGH VPCTESSMPP 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-38 | 38 | 143 | 7 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 2e-38 | 38 | 143 | 7 | 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 | ||||
Vvi.11929 | 0.0 | fruit |
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 | AM463258 | 0.0 | AM463258.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X156046.15, clone ENTAV 115. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002279521.1 | 1e-168 | PREDICTED: LOB domain-containing protein 18 | ||||
Swissprot | O22131 | 3e-82 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | A0A438IWZ6 | 1e-166 | A0A438IWZ6_VITVI; LOB domain-containing protein 18 | ||||
TrEMBL | F6I373 | 1e-166 | F6I373_VITVI; Uncharacterized protein | ||||
STRING | VIT_15s0048g00830.t01 | 1e-167 | (Vitis vinifera) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
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 | 5e-78 | LOB domain-containing protein 18 |
Link Out ? help Back to Top | |
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Phytozome | GSVIVT01027621001 |
Publications ? help Back to Top | |||
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