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 | Rsa1.0_19462.1_g00001.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
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Family | LBD | ||||||||
Protein Properties | Length: 101aa MW: 10838.4 Da PI: 8.3839 | ||||||||
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 | 115.8 | 2.7e-36 | 15 | 101 | 1 | 86 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkC +dC++apyf +eq +++fa++hk+FGasnv+kll ++p ++r +a+ +++yeA+ar++dPvyG+v++i++lqq Rsa1.0_19462.1_g00001.1 15 PCGACKFLRRKCLSDCIFAPYFSSEQgAARFAAIHKVFGASNVSKLLLNVPIHDRCEAVVTIAYEAQARLHDPVYGCVSHIFSLQQ 100 7***********************9989*********************************************************9 PP DUF260 86 q 86 q Rsa1.0_19462.1_g00001.1 101 Q 101 7 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 21.847 | 14 | 101 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.7E-35 | 15 | 101 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 101 aa Download sequence Send to blast |
MATSGNSTTA GTGSPCGACK FLRRKCLSDC IFAPYFSSEQ GAARFAAIHK VFGASNVSKL 60 LLNVPIHDRC EAVVTIAYEA QARLHDPVYG CVSHIFSLQQ Q |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 5e-38 | 7 | 101 | 3 | 96 | LOB family transfactor Ramosa2.1 |
5ly0_B | 5e-38 | 7 | 101 | 3 | 96 | LOB family transfactor Ramosa2.1 |
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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 | Rsa1.0_19462.1_g00001.1 |
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 | AC241104 | 1e-138 | AC241104.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH017L09, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006411500.1 | 5e-68 | LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 4e-68 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | V4MJY7 | 1e-66 | V4MJY7_EUTSA; Uncharacterized protein | ||||
STRING | XP_006411500.1 | 2e-67 | (Eutrema salsugineum) |
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 | ||||
AT2G42430.1 | 5e-61 | lateral organ boundaries-domain 16 |