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.9NG747100.1.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: 181aa MW: 18671 Da PI: 6.7181 | ||||||||
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 | 119.2 | 2.4e-37 | 15 | 113 | 1 | 98 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkCa++Cv+ap+f+ae+ +++fa++hk+FGasn kll+++ + +r++a+++++yeA+ar+rdP+yG+v++i++lqqq+++ Pavir.9NG747100.1.p 15 PCGACKFLRRKCAAECVFAPHFCAEDgAAQFAAIHKVFGASNAAKLLQQVAPADRSEAAATVTYEAQARLRDPIYGCVAHIFALQQQVAS 104 7***********************9989************************************************************** PP DUF260 90 lkaelallk 98 l+ ++ ++k Pavir.9NG747100.1.p 105 LQMQVLQAK 113 **9987766 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.385 | 14 | 116 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.6E-36 | 15 | 111 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 181 aa Download sequence Send to blast |
MASSGSGGGG APGSPCGACK FLRRKCAAEC VFAPHFCAED GAAQFAAIHK VFGASNAAKL 60 LQQVAPADRS EAAATVTYEA QARLRDPIYG CVAHIFALQQ QVASLQMQVL QAKVQVAQTM 120 AAAGGPQAAG SPLLQRWPLE PESLSTQSSG CYSARSCDGS ASLQEMYCGF GEQEEGSYTR 180 * |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 6e-33 | 13 | 116 | 9 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 6e-33 | 13 | 116 | 9 | 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 | ||||
Pvr.33736 | 0.0 | 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 and faintly in shoots. {ECO:0000269|PubMed:12068116}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcriptional activator (PubMed:19717544, PubMed:22974309). Involved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19 (PubMed:17259263). Functions in the initiation and emergence of lateral roots, in conjunction with LBD18, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269|PubMed:17259263, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:22974309, ECO:0000269|PubMed:23749813, ECO:0000269|PubMed:26059335}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Pavir.9NG747100.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263, ECO:0000269|PubMed:23749813}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | EF051734 | 0.0 | EF051734.1 Zea mays RTCN mRNA, complete cds. | |||
GenBank | KJ728375 | 0.0 | KJ728375.1 Zea mays clone pUT6657 LOB transcription factor (LOB21) mRNA, partial cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_004985693.1 | 1e-111 | LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 5e-55 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | K4AFS0 | 1e-110 | K4AFS0_SETIT; Uncharacterized protein | ||||
STRING | Pavir.J24246.1.p | 1e-127 | (Panicum virgatum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP10262 | 33 | 44 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G42430.1 | 2e-46 | lateral organ boundaries-domain 16 |
Link Out ? help Back to Top | |
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Phytozome | Pavir.9NG747100.1.p |