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 | LOC_Os03g05500.1 | ||||||||
Common Name | CRLL1, LOC4331627, Os03g0149000, OSNPB_030149000 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
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Family | LBD | ||||||||
Protein Properties | Length: 186aa MW: 19631 Da PI: 6.4849 | ||||||||
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 | 123.3 | 1.2e-38 | 13 | 113 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +C aCk+lrrkCa++Cv+apyf+ae+ +++fa++hk+FGasn kll+++ + +r++++++++yeA+ar+rdPvyG+v++i++lqqql++l++ LOC_Os03g05500.1 13 PCGACKFLRRKCAAECVFAPYFCAEDgAAQFAAIHKVFGASNAAKLLQQVAPGDRSEVAATVTYEAQARLRDPVYGCVAHIFALQQQLATLQV 105 7***********************9989***************************************************************** PP DUF260 93 elallkee 100 ++a++k++ LOC_Os03g05500.1 106 QVAQAKTQ 113 ***99987 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.791 | 12 | 114 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 3.0E-37 | 13 | 111 | IPR004883 | Lateral organ boundaries, LOB |
Plant Ontology ? help Back to Top | ||||||
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PO Term | PO Category | PO Description | ||||
PO:0009005 | anatomy | root |
Sequence ? help Back to Top |
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Protein Sequence Length: 186 aa Download sequence Send to blast |
MASSGVGGVP GSPCGACKFL RRKCAAECVF APYFCAEDGA AQFAAIHKVF GASNAAKLLQ 60 QVAPGDRSEV AATVTYEAQA RLRDPVYGCV AHIFALQQQL ATLQVQVAQA KTQVAQTLAA 120 AGMLTAGNPL LQHQQQQQQA WQIEHESTMT STQSSGCYSA PRSDGSTSLQ DMYCFGEQEE 180 GSYSR* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 1e-33 | 11 | 114 | 9 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 1e-33 | 11 | 114 | 9 | 111 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Os.81319 | 0.0 | root |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | |||||
Expression Atlas | Q5KQR7 |
Expression -- Description ? help Back to Top | ||||||
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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 | ||||||
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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 | LOC_Os03g05500.1 |
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 | - |
Phenotype -- Mutation ? help Back to Top | ||||||
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Source | ID | |||||
RiceGE | Os03g05500 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AB200235 | 0.0 | AB200235.1 Oryza sativa Japonica Group CRLL1 mRNA for LOB domain protein, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015632118.1 | 1e-133 | LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 4e-52 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | I1P7L2 | 1e-132 | I1P7L2_ORYGL; Uncharacterized protein | ||||
TrEMBL | Q5KQR7 | 1e-132 | Q5KQR7_ORYSJ; Expressed protein | ||||
STRING | OS03T0149000-01 | 1e-133 | (Oryza sativa) | ||||
STRING | ORGLA03G0035800.1 | 1e-133 | (Oryza glaberrima) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP10262 | 33 | 44 | Representative plant | OGRP405 | 15 | 100 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G58190.1 | 1e-37 | lateral organ boundaries-domain 29 |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os03g05500.1 |
Entrez Gene | 4331627 |