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 | GSBRNA2T00088594001 | ||||||||
Common Name | GSBRNA2T00088594001 | ||||||||
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; Brassica
|
||||||||
Family | LBD | ||||||||
Protein Properties | Length: 247aa MW: 26575.5 Da PI: 7.8093 | ||||||||
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 | 122.6 | 2.1e-38 | 15 | 115 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkCa+dC++apyf +eq +++fa++hk+FGasnv+kll ++p ++r +a+ +++yeA+ar++dPvyG+v++i++lqqq++ GSBRNA2T00088594001 15 PCGACKFLRRKCASDCIFAPYFSSEQgAARFAAIHKVFGASNVSKLLLNVPIHDRCEAVVTIAYEAQARLHDPVYGCVSHIFALQQQVAY 104 7***********************9989************************************************************** PP DUF260 90 lkaelallkee 100 l+a++ ++k++ GSBRNA2T00088594001 105 LQAQVMQMKAQ 115 ****9999887 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.885 | 14 | 116 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.3E-37 | 15 | 113 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 247 aa Download sequence Send to blast |
MATSGNDTTT GTGSPCGACK FLRRKCASDC IFAPYFSSEQ GAARFAAIHK VFGASNVSKL 60 LLNVPIHDRC EAVVTIAYEA QARLHDPVYG CVSHIFALQQ QVAYLQAQVM QMKAQIAGHQ 120 TSAAGDLRNS SESTHQQYMT CQQTTGSPIG NAYSTAYNHH HQPYYGHVNP NNPVSPQSSL 180 EETFSNTSSD VTTTANVRET QQTGGGVYGH GGLGFHEGYP NKKRSVSYCN SDLGELQALA 240 LRMMKN* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 4e-37 | 8 | 109 | 4 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 4e-37 | 8 | 109 | 4 | 104 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 | ||||||
---|---|---|---|---|---|---|
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 | |
---|---|
Source | Link |
PlantRegMap | GSBRNA2T00088594001 |
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 | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AB473851 | 0.0 | AB473851.1 Arabidopsis thaliana ASL18 mRNA for ASYMMETRIC LEAVES2-like 18 protein, complete cds. | |||
GenBank | AF345339 | 0.0 | AF345339.1 Arabidopsis thaliana MHK10.15/At2g42430 mRNA, complete cds. | |||
GenBank | AF410334 | 0.0 | AF410334.1 Arabidopsis thaliana At2g42430/MHK10.15 mRNA, complete cds. | |||
GenBank | AF447890 | 0.0 | AF447890.1 Arabidopsis thaliana LOB DOMAIN 16 (LBD16) mRNA, complete cds. | |||
GenBank | BT000866 | 0.0 | BT000866.1 Arabidopsis thaliana At2g42430/MHK10.15 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_009142063.1 | 0.0 | PREDICTED: LOB domain-containing protein 16-like | ||||
Swissprot | Q9SLB7 | 1e-166 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | A0A078IF25 | 0.0 | A0A078IF25_BRANA; BnaA04g24470D protein | ||||
TrEMBL | A0A3P6CT82 | 0.0 | A0A3P6CT82_BRACM; Uncharacterized protein | ||||
STRING | Bra016877.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM108 | 28 | 359 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT2G42430.1 | 1e-133 | lateral organ boundaries-domain 16 |