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 | Tp57577_TGAC_v2_mRNA16878 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
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Family | LBD | ||||||||
Protein Properties | Length: 115aa MW: 12563.6 Da PI: 8.2817 | ||||||||
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 | 124.5 | 5.4e-39 | 13 | 101 | 1 | 88 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilkl 83 +C aCk+lrrkC++dC++apyf++eq p++fa++hk+FGasnv+kll ++p +er +a+ +++yeA+ar+rdPvyG+v++i++l Tp57577_TGAC_v2_mRNA16878 13 PCGACKFLRRKCVPDCIFAPYFCSEQgPARFAAIHKVFGASNVSKLLLHIPAHERCEAVVTIAYEAQARIRDPVYGCVSHIFAL 96 7*************************99******************************************************** PP DUF260 84 qqqle 88 qqq++ Tp57577_TGAC_v2_mRNA16878 97 QQQVN 101 ***86 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 21.185 | 12 | 114 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.2E-37 | 13 | 101 | IPR004883 | Lateral organ boundaries, LOB |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0010311 | Biological Process | lateral root formation | ||||
GO:0005634 | Cellular Component | nucleus |
Sequence ? help Back to Top |
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Protein Sequence Length: 115 aa Download sequence Send to blast |
MASNGTSSGT GSPCGACKFL RRKCVPDCIF APYFCSEQGP ARFAAIHKVF GASNVSKLLL 60 HIPAHERCEA VVTIAYEAQA RIRDPVYGCV SHIFALQQQV NIPYYMPMFV YVNE* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 8e-40 | 6 | 101 | 4 | 98 | LOB family transfactor Ramosa2.1 |
5ly0_B | 8e-40 | 6 | 101 | 4 | 98 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
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}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00309 | DAP | Transfer from AT2G42430 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Tp57577_TGAC_v2_mRNA16878 |
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 | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | BT142364 | 1e-134 | BT142364.1 Medicago truncatula clone JCVI-FLMt-14N17 unknown mRNA. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_013449860.1 | 4e-67 | LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 2e-59 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | A0A2K3LEZ1 | 2e-66 | A0A2K3LEZ1_TRIPR; LOB domain-containing protein 16-like | ||||
TrEMBL | A0A2Z6MIP7 | 7e-66 | A0A2Z6MIP7_TRISU; Uncharacterized protein | ||||
STRING | EOX94503 | 7e-63 | (Theobroma cacao) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF4509 | 33 | 58 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G42430.1 | 8e-62 | lateral organ boundaries-domain 16 |
Link Out ? help Back to Top | |
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Phytozome | Tp57577_TGAC_v2_mRNA16878 |