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 | Carubv10001875m | ||||||||
Common Name | CARUB_v10001875mg | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
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Family | LBD | ||||||||
Protein Properties | Length: 232aa MW: 24125.4 Da PI: 7.2029 | ||||||||
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 | 130.3 | 8e-41 | 19 | 119 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkae 93 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++pe++r+da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++e Carubv10001875m 19 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLHVPEHKRPDAVVSICFEAQARLRDPIYGCVSHIVSLQQQVLSLQTE 112 7***********************9989****************************************************************** PP DUF260 94 lallkee 100 l++l+++ Carubv10001875m 113 LSYLQAH 119 **99986 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 23.471 | 18 | 120 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 3.5E-39 | 19 | 117 | IPR004883 | Lateral organ boundaries, LOB |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0010089 | Biological Process | xylem development | ||||
GO:0010199 | Biological Process | organ boundary specification between lateral organs and the meristem |
Sequence ? help Back to Top |
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Protein Sequence Length: 232 aa Download sequence Send to blast |
MSGSGINPSS SGGGGGGGPC GACKFLRRKC VAGCIFAPYF DSEQGAAHFA AVHKVFGASN 60 VSKLLLHVPE HKRPDAVVSI CFEAQARLRD PIYGCVSHIV SLQQQVLSLQ TELSYLQAHL 120 ATLELPQPQP PAVPVSSSGS PLQALSITDL PTISPSVYDL SSIFEPVMSS TWAMQQQPRP 180 SDHLFGLPSS SSIGGGGDLQ ALAREFIHGG QMPSQPSPGT SGSASTMIKR E* |
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 | 15 | 120 | 7 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 5e-38 | 15 | 120 | 7 | 111 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Involved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes. {ECO:0000269|PubMed:19088331}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Carubv10001875m |
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 | AB473852 | 0.0 | AB473852.1 Arabidopsis thaliana ASL19 mRNA for ASYMMETRIC LEAVES2-like 19 protein, complete cds. | |||
GenBank | AF432232 | 0.0 | AF432232.1 Arabidopsis thaliana LOB DOMAIN 30 (LBD30) mRNA, complete cds. | |||
GenBank | BT026407 | 0.0 | BT026407.1 Arabidopsis thaliana At4g00220 mRNA, complete cds. | |||
GenBank | DQ446787 | 0.0 | DQ446787.1 Arabidopsis thaliana clone pENTR221-At4g00220 LOB domain protein 30/lateral organ boundaries domain protein 30 (At4g00220) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006288584.1 | 1e-166 | LOB domain-containing protein 30 | ||||
Swissprot | O81323 | 1e-132 | LBD30_ARATH; LOB domain-containing protein 30 | ||||
TrEMBL | R0FGQ6 | 1e-165 | R0FGQ6_9BRAS; Uncharacterized protein | ||||
STRING | Cagra.1261s0014.1.p | 1e-166 | (Capsella grandiflora) | ||||
STRING | XP_006288584.1 | 1e-166 | (Capsella rubella) |
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 | ||||
AT4G00220.1 | 1e-111 | LBD family protein |
Link Out ? help Back to Top | |
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Phytozome | Carubv10001875m |
Entrez Gene | 17881661 |
Publications ? help Back to Top | |||
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