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_Os03g05510.1 | ||||||||
Common Name | ARL1, CRL1, LOC9271993, Os03g0149100, OSNPB_030149100 | ||||||||
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: 260aa MW: 26736.6 Da PI: 6.432 | ||||||||
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 | 126.7 | 1.1e-39 | 7 | 106 | 1 | 99 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +C aCk+lrrkC+++Cv+apyf++eq +++fa++hk+FGasnv+kll++lp +r++a+ ++ yeA+ar+rdP+yG+v++i++lqqq+++l+a LOC_Os03g05510.1 7 PCGACKFLRRKCVRGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLAHLPLADRPEAAVTISYEAQARLRDPIYGCVAHIFALQQQVMTLQA 99 7*************************89***************************************************************** PP DUF260 93 elallke 99 +la+lk+ LOC_Os03g05510.1 100 QLASLKA 106 **99886 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.385 | 6 | 108 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 7.2E-38 | 7 | 105 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 260 aa Download sequence Send to blast |
MTGFGSPCGA CKFLRRKCVR GCVFAPYFCH EQGAAHFAAI HKVFGASNVS KLLAHLPLAD 60 RPEAAVTISY EAQARLRDPI YGCVAHIFAL QQQVMTLQAQ LASLKAAAAQ GIHHQDVGAT 120 TKGGYMSAAA TAADDQLGYG GYNQWCGSNG GGAPAASQPG AYSSNGGAGH GHDSITALLA 180 AGSDYMQHSL YHAFEHSEGA GAVDDGHAAA AAFEAAAESS SCGMAASFAA DESVWRSSSS 240 GYQDCEDLQS VAYAYLNRS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 4e-35 | 3 | 101 | 7 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 4e-35 | 3 | 101 | 7 | 104 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | |||||
Expression Atlas | Q5UG13 |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in unelongating basal internodes, at the base of shoot in parenchyma cells adjacent to the peripheral vascular cylinder of the stem, and root pericycle cells (PubMed:15829602). Expressed in lateral and adventitious root primordia, tiller primordia, vascular tissues, scutellum, and young pedicels (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615, ECO:0000269|PubMed:21806801}. |
Function -- GeneRIF ? help Back to Top | ||||||
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Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | LOC_Os03g05510.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}. |
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 | Os03g05510 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AB200234 | 0.0 | AB200234.1 Oryza sativa Japonica Group CRL1 mRNA for LOB domain protein, complete cds. | |||
GenBank | AY736375 | 0.0 | AY736375.1 Oryza sativa (japonica cultivar-group) adventitious rootless1 (ARL1) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015632119.1 | 0.0 | LOB domain-containing protein CRL1-like | ||||
Swissprot | Q5UG13 | 0.0 | LBD_ORYSJ; LOB domain-containing protein CRL1 | ||||
TrEMBL | A0A0D3FDV0 | 0.0 | A0A0D3FDV0_9ORYZ; Uncharacterized protein | ||||
TrEMBL | A0A0E0GGU9 | 0.0 | A0A0E0GGU9_ORYNI; Uncharacterized protein | ||||
TrEMBL | A0A0E0NPQ8 | 0.0 | A0A0E0NPQ8_ORYRU; Uncharacterized protein | ||||
TrEMBL | B8ANC2 | 0.0 | B8ANC2_ORYSI; Uncharacterized protein | ||||
TrEMBL | I1P7L3 | 0.0 | I1P7L3_ORYGL; Uncharacterized protein | ||||
STRING | OS03T0149100-00 | 0.0 | (Oryza sativa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP2501 | 38 | 93 | Representative plant | OGRP405 | 15 | 100 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G42440.1 | 7e-57 | LBD family protein |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os03g05510.1 |
Entrez Gene | 9271993 |
Publications ? help Back to Top | |||
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