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_Os09g29460.1 | ||||||||
Common Name | HOX4, LOC4347333, OJ1595_D08.21, Os09g0470500 | ||||||||
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 | HD-ZIP | ||||||||
Protein Properties | Length: 278aa MW: 29392.3 Da PI: 4.3585 | ||||||||
Description | HD-ZIP 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 | Homeobox | 59.4 | 5.9e-19 | 51 | 104 | 3 | 56 |
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+++++ eq+++Le+ Fe ++++ e++++LA+ lgL+ rqV vWFqNrRa++k LOC_Os09g29460.1 51 KKRRLSVEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 104 456899***********************************************9 PP | |||||||
2 | HD-ZIP_I/II | 132.8 | 1.3e-42 | 50 | 142 | 1 | 93 |
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 ekkrrls eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++yd+l+ ++++L++++++L +e+ke LOC_Os09g29460.1 50 EKKRRLSVEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYAALRHSYDSLRLDHDALRRDKDALLAEIKE 142 69**************************************************************************************99987 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF46689 | 1.3E-19 | 39 | 108 | IPR009057 | Homeodomain-like |
PROSITE profile | PS50071 | 17.297 | 46 | 106 | IPR001356 | Homeobox domain |
SMART | SM00389 | 2.1E-18 | 49 | 110 | IPR001356 | Homeobox domain |
CDD | cd00086 | 6.57E-18 | 51 | 107 | No hit | No description |
Pfam | PF00046 | 3.0E-16 | 51 | 104 | IPR001356 | Homeobox domain |
Gene3D | G3DSA:1.10.10.60 | 1.3E-19 | 53 | 113 | IPR009057 | Homeodomain-like |
PRINTS | PR00031 | 9.5E-6 | 77 | 86 | IPR000047 | Helix-turn-helix motif |
PROSITE pattern | PS00027 | 0 | 81 | 104 | IPR017970 | Homeobox, conserved site |
PRINTS | PR00031 | 9.5E-6 | 86 | 102 | IPR000047 | Helix-turn-helix motif |
Pfam | PF02183 | 5.4E-17 | 106 | 147 | IPR003106 | Leucine zipper, homeobox-associated |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0043565 | Molecular Function | sequence-specific DNA binding |
Plant Ontology ? help Back to Top | ||||||
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PO Term | PO Category | PO Description | ||||
PO:0009037 | anatomy | lemma | ||||
PO:0001047 | developmental stage | lemma development stage | ||||
PO:0007130 | developmental stage | sporophyte reproductive stage |
Sequence ? help Back to Top |
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Protein Sequence Length: 278 aa Download sequence Send to blast |
MKRPGGAGGG GGSPSLVTMA NSSDDGYGGV GMEAEGDVEE EMMACGGGGE KKRRLSVEQV 60 RALERSFEVE NKLEPERKAR LARDLGLQPR QVAVWFQNRR ARWKTKQLER DYAALRHSYD 120 SLRLDHDALR RDKDALLAEI KELKAKLGDE EAAASFTSVK EEPAASDGPP AAGFGSSDSD 180 SSAVLNDVDA AGAAPAATDA LAPEACTFLG APPAAGAGAG AAAAASHEEV FFHGNFLKVE 240 EDETGFLDDD EPCGGFFADD QPPPLSSWWA EPTEHWN* |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 75 | 81 | ERKARLA |
2 | 98 | 106 | RRARWKTKQ |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Os.2364 | 0.0 | flower| leaf| panicle| root| stem |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | E-value | ||||
GEO | 32990693 | 0.0 | ||||
Expression Atlas | Q6K498 | - |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in leaf and floral organ primordia, floral meristems, embryonic axis and cells surrounding the vascular bundles. Expressed in the vasculature of roots, stem, leaves and spikelets, and in the vascular bundle of the scutellum in embryos. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in leaf and floral organ primordia, floral meristems, embryonic axis and cells surrounding the vascular bundles. Expressed in the vasculature of roots, stem, leaves and spikelets, and in the vascular bundle of the scutellum in embryos. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Probable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}. | |||||
UniProt | Probable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | LOC_Os09g29460.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}. | |||||
UniProt | INDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}. |
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 | Os09g29460 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AK099710 | 0.0 | AK099710.1 Oryza sativa Japonica Group cDNA clone:J013077J22, full insert sequence. | |||
GenBank | AK105484 | 0.0 | AK105484.1 Oryza sativa Japonica Group cDNA clone:001-127-B05, full insert sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015612509.1 | 0.0 | homeobox-leucine zipper protein HOX4 | ||||
Swissprot | Q6K498 | 0.0 | HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4 | ||||
Swissprot | Q9XH37 | 0.0 | HOX4_ORYSI; Homeobox-leucine zipper protein HOX4 | ||||
TrEMBL | A0A0E0IL30 | 0.0 | A0A0E0IL30_ORYNI; Uncharacterized protein | ||||
TrEMBL | A0A0E0QSM3 | 0.0 | A0A0E0QSM3_ORYRU; Uncharacterized protein | ||||
TrEMBL | B8BCN8 | 0.0 | B8BCN8_ORYSI; Uncharacterized protein | ||||
STRING | ORUFI09G14530.1 | 0.0 | (Oryza rufipogon) | ||||
STRING | OS09T0470500-01 | 0.0 | (Oryza sativa) | ||||
STRING | ONIVA09G13990.1 | 0.0 | (Oryza nivara) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP3009 | 34 | 82 | Representative plant | OGRP129 | 16 | 189 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G40060.1 | 3e-39 | homeobox protein 16 |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os09g29460.1 |
Entrez Gene | 4347333 |
Publications ? help Back to Top | |||
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