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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | ONIVA03G03570.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
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Family | LBD | ||||||||
Protein Properties | Length: 104aa MW: 10838.4 Da PI: 8.1182 | ||||||||
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 | 118 | 5.5e-37 | 13 | 100 | 1 | 87 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqql 87 +C aCk+lrrkCa++Cv+apyf+ae+ +++fa++hk+FGasn kll+++ + +r++++++++yeA+ar+rdPvyG+v++i++lqqq+ ONIVA03G03570.1 13 PCGACKFLRRKCAAECVFAPYFCAEDgAAQFAAIHKVFGASNAAKLLQQVAPGDRSEVAATVTYEAQARLRDPVYGCVAHIFALQQQV 100 7***********************9989***********************************************************8 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 21.865 | 12 | 104 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 7.1E-36 | 13 | 100 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 104 aa Download sequence Send to blast |
MASSGVGGVP GSPCGACKFL RRKCAAECVF APYFCAEDGA AQFAAIHKVF GASNAAKLLQ 60 QVAPGDRSEV AATVTYEAQA RLRDPVYGCV AHIFALQQQV ITNS |
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-32 | 11 | 100 | 9 | 97 | LOB family transfactor Ramosa2.1 |
5ly0_B | 2e-32 | 11 | 100 | 9 | 97 | LOB family transfactor Ramosa2.1 |
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Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615, ECO:0000269|PubMed:21806801}. | |||||
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}. |
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}. | |||||
UniProt | INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}. |
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 | AC105734 | 1e-176 | AC105734.2 Oryza sativa Japonica Group chromosome 3 clone OSJNBb0050N02, complete sequence. | |||
GenBank | AP014959 | 1e-176 | AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence. | |||
GenBank | CP012611 | 1e-176 | CP012611.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 3 sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015632118.1 | 5e-68 | LOB domain-containing protein 16 | ||||
Swissprot | Q5UG13 | 6e-47 | LBD_ORYSJ; LOB domain-containing protein CRL1 | ||||
Swissprot | Q9SLB7 | 6e-47 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | A0A0D3FDU9 | 2e-69 | A0A0D3FDU9_9ORYZ; Uncharacterized protein | ||||
TrEMBL | A0A0D9Z237 | 2e-69 | A0A0D9Z237_9ORYZ; Uncharacterized protein | ||||
TrEMBL | A0A0E0GGU8 | 2e-69 | A0A0E0GGU8_ORYNI; Uncharacterized protein | ||||
TrEMBL | A0A0E0NPQ7 | 2e-69 | A0A0E0NPQ7_ORYRU; Uncharacterized protein | ||||
STRING | OGLUM03G03700.1 | 4e-70 | (Oryza glumipatula) | ||||
STRING | ORUFI03G03540.1 | 4e-70 | (Oryza rufipogon) | ||||
STRING | ONIVA03G03570.1 | 4e-70 | (Oryza nivara) | ||||
STRING | OBART03G03820.1 | 4e-70 | (Oryza barthii) |
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 | ||||
AT3G58190.1 | 2e-43 | lateral organ boundaries-domain 29 |