PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | mrna08250.1-v1.0-hybrid | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
|
||||||||
Family | LBD | ||||||||
Protein Properties | Length: 216aa MW: 23571.6 Da PI: 7.6952 | ||||||||
Description | LBD family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | DUF260 | 127 | 8.6e-40 | 18 | 118 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkCa+dC++apyf++eq p++fa++hk+FGasnv+kll ++p ++r +a+ +++yeA+ar+rdPvyG+v++i++lqq mrna08250.1-v1.0-hybrid 18 PCGACKFLRRKCASDCIFAPYFCSEQgPARFAAIHKVFGASNVSKLLLHVPVHDRCEAVVTIAYEAQARIRDPVYGCVAHIFALQQ 103 7*************************99********************************************************** PP DUF260 86 qleqlkaelallkee 100 q+++l+a+l ++k++ mrna08250.1-v1.0-hybrid 104 QVACLQAQLMQVKAQ 118 *********999887 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.668 | 17 | 119 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.9E-38 | 18 | 116 | IPR004883 | Lateral organ boundaries, LOB |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0010311 | Biological Process | lateral root formation | ||||
GO:0005634 | Cellular Component | nucleus |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 216 aa Download sequence Send to blast |
MASGSTGSSG TTTGTGSPCG ACKFLRRKCA SDCIFAPYFC SEQGPARFAA IHKVFGASNV 60 SKLLLHVPVH DRCEAVVTIA YEAQARIRDP VYGCVAHIFA LQQQVACLQA QLMQVKAQVA 120 HQNLMDSRTM ESQWQGNVNG VTNFPSYPSY MNPISPQSSL DSIDHSSNDT INYMQETQSS 180 SRSEEFPLQA CSKKRAYNST ELGELQELAL RMMRN* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 3e-39 | 8 | 125 | 1 | 112 | LOB family transfactor Ramosa2.1 |
5ly0_B | 3e-39 | 8 | 125 | 1 | 112 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 | |||
---|---|---|---|
Motif ID | Method | Source | Motif file |
MP00309 | DAP | Transfer from AT2G42430 | Download |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | mrna08250.1-v1.0-hybrid |
Regulation -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | INDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263, ECO:0000269|PubMed:23749813}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_004289919.1 | 1e-162 | PREDICTED: LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 7e-79 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | M5VUH7 | 1e-124 | M5VUH7_PRUPE; Uncharacterized protein | ||||
STRING | XP_004289919.1 | 1e-162 | (Fragaria vesca) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF4509 | 33 | 58 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT2G42430.1 | 1e-64 | lateral organ boundaries-domain 16 |
Link Out ? help Back to Top | |
---|---|
Phytozome | mrna08250.1-v1.0-hybrid |