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_Os08g44940.1 | ||||||||
Common Name | LOC4346341, Os08g0563400, OsJ_28302, OSNPB_080563400, P0543D10.31 | ||||||||
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: 216aa MW: 23239.2 Da PI: 6.2822 | ||||||||
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 | 122 | 3.3e-38 | 7 | 107 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasn +k+l +lp ++r +a+ ++ yeA+ar+rdP+yG+v++i++lqqq+ +l+a LOC_Os08g44940.1 7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNASKILMHLPVSDRCEAAVTMSYEAQARLRDPIYGCVAHIFSLQQQVVSLQA 99 7*************************89***************************************************************** PP DUF260 93 elallkee 100 +l++lk++ LOC_Os08g44940.1 100 QLESLKAQ 107 ***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 | 21.695 | 6 | 108 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 2.9E-36 | 7 | 105 | 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: 216 aa Download sequence Send to blast |
MTGLGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNAS KILMHLPVSD 60 RCEAAVTMSY EAQARLRDPI YGCVAHIFSL QQQVVSLQAQ LESLKAQATQ GYGDGCSISS 120 PQNDSCGNML TSIVQDEQQF VGPTMASNSS VKNENHSYIA NGHLAPMSAQ SSQGFEAELC 180 MAEYSNTNPC CSVQGNWYHD MEDLQSVAFA YLNQA* |
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-34 | 3 | 103 | 7 | 106 | LOB family transfactor Ramosa2.1 |
5ly0_B | 1e-34 | 3 | 103 | 7 | 106 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | |||||
Expression Atlas | Q6ZBW8 |
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}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | LOC_Os08g44940.1 |
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}. |
Phenotype -- Mutation ? help Back to Top | ||||||
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Source | ID | |||||
RiceGE | Os08g44940 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AP004587 | 0.0 | AP004587.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0543D10. | |||
GenBank | AP014964 | 0.0 | AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence. | |||
GenBank | CP012616 | 0.0 | CP012616.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 8 sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015648252.1 | 1e-161 | LOB domain-containing protein CRL1-like | ||||
Swissprot | Q5UG13 | 1e-66 | LBD_ORYSJ; LOB domain-containing protein CRL1 | ||||
TrEMBL | A0A0D3H3A5 | 1e-159 | A0A0D3H3A5_9ORYZ; Uncharacterized protein | ||||
TrEMBL | A0A0E0AZ21 | 1e-159 | A0A0E0AZ21_9ORYZ; Uncharacterized protein | ||||
TrEMBL | A0A0E0IGE8 | 1e-159 | A0A0E0IGE8_ORYNI; Uncharacterized protein | ||||
TrEMBL | A0A0E0QMG8 | 1e-159 | A0A0E0QMG8_ORYRU; Uncharacterized protein | ||||
TrEMBL | A2YY71 | 1e-159 | A2YY71_ORYSI; Uncharacterized protein | ||||
TrEMBL | I1QKH3 | 1e-159 | I1QKH3_ORYGL; Uncharacterized protein | ||||
TrEMBL | Q6ZBW8 | 1e-159 | Q6ZBW8_ORYSJ; Os08g0563400 protein | ||||
STRING | OGLUM08G25340.1 | 1e-160 | (Oryza glumipatula) | ||||
STRING | ORUFI08G26340.1 | 1e-160 | (Oryza rufipogon) | ||||
STRING | OS08T0563400-00 | 1e-160 | (Oryza sativa) | ||||
STRING | ONIVA09G01330.1 | 1e-160 | (Oryza nivara) | ||||
STRING | ORGLA08G0192400.1 | 1e-160 | (Oryza glaberrima) | ||||
STRING | OBART08G23860.1 | 1e-160 | (Oryza barthii) |
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 | ||||
AT3G58190.1 | 2e-54 | lateral organ boundaries-domain 29 |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os08g44940.1 |
Entrez Gene | 4346341 |
Publications ? help Back to Top | |||
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