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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | LOC_Os04g55560.2 | ||||||||
Common Name | OsJ_16420 | ||||||||
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 | AP2 | ||||||||
Protein Properties | Length: 461aa MW: 48499.5 Da PI: 7.0458 | ||||||||
Description | AP2 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 | AP2 | 53.6 | 5.7e-17 | 110 | 159 | 1 | 55 |
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV++++++grW+++I+d + k+++lg f+ta Aa+a+++a+ k++g LOC_Os04g55560.2 110 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 159 78*******************......55************************997 PP | |||||||
2 | AP2 | 46.4 | 1e-14 | 202 | 252 | 1 | 55 |
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV+ +k grW+A+ + +k+++lg f+t+eeAa+a+++a+ k +g LOC_Os04g55560.2 202 SKYRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEEEAARAYDRAAIKCNG 252 89********.7******5553..2.26**********************99776 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF54171 | 9.15E-16 | 110 | 168 | IPR016177 | DNA-binding domain |
Pfam | PF00847 | 5.2E-9 | 110 | 159 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:3.30.730.10 | 4.2E-17 | 111 | 167 | IPR001471 | AP2/ERF domain |
SMART | SM00380 | 1.8E-31 | 111 | 173 | IPR001471 | AP2/ERF domain |
PROSITE profile | PS51032 | 17.701 | 111 | 167 | IPR001471 | AP2/ERF domain |
Pfam | PF00847 | 1.0E-10 | 202 | 252 | IPR001471 | AP2/ERF domain |
SuperFamily | SSF54171 | 1.96E-18 | 202 | 262 | IPR016177 | DNA-binding domain |
CDD | cd00018 | 2.55E-25 | 202 | 262 | No hit | No description |
Gene3D | G3DSA:3.30.730.10 | 2.4E-17 | 203 | 260 | IPR001471 | AP2/ERF domain |
SMART | SM00380 | 3.0E-33 | 203 | 266 | IPR001471 | AP2/ERF domain |
PROSITE profile | PS51032 | 16.489 | 203 | 260 | IPR001471 | AP2/ERF domain |
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:0010073 | Biological Process | meristem maintenance | ||||
GO:0010093 | Biological Process | specification of floral organ identity | ||||
GO:0048316 | Biological Process | seed development | ||||
GO:0048481 | Biological Process | plant ovule development | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 461 aa Download sequence Send to blast |
MWDLNDSPAA EAAPPPLSPS ADDSGASSSS AAAVVEIPDD ADDDSAAVVV VTRQFFPPAV 60 PGGGGDPAPG NARAGWLRLA GAAPPVAATG PAASAAVSKK SRRGPRSRSS QYRGVTFYRR 120 TGRWESHIWD CGKQVYLGGF DTAHAAARAY DRAAIKFRGV EADINFSLED YEDDLKQMSN 180 LTKEEFVHVL RRQSTGFPRG SSKYRGVTLH KCGRWEARMG QFLGKKYVYL GLFDTEEEAA 240 RAYDRAAIKC NGKDAVTNFD PSIYAGEFEP PAAATGDAAE HNLDLSLGSS AGSKRGNVDG 300 GGDDEITGGG GGGAGSDQRV PMAFDLDWQT AAARSTKAKF DQNSNHPQMP PVLQVTHLPF 360 SPRHHHQFLS NGDPGTAGGL SLTIGAGMAG HWPPQQQQGW GNAGGMSWPH PPHPPPPPTN 420 AAAAATATAA AASSRFPPYI ATQASTWLQK NGFHSLTRPT * |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Os.59306 | 1e-156 | callus| flower| leaf| panicle| root| stem |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | E-value | ||||
GEO | 32985200 | 1e-156 | ||||
Expression Atlas | B9FCV0 | - |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: In developing panicles, highly expressed in the spikelet abscission zone (AZ) and the inner floral organs of 2 mm long spikelets. Later present at weak levels in the apiculus as well as in the palea and lemma to progressively fades out in 8 mm long spikelets. {ECO:0000269|PubMed:22408071}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in seedlings, leaves, stems, nodes, sheaths, panicles and young spikelets (PubMed:22408071). Accumulates in the spikelet abscission zone (AZ) via a positive regulation by the transcription factors SH4 and SH5 (PubMed:22408071, PubMed:24923192). {ECO:0000269|PubMed:22408071, ECO:0000269|PubMed:24923192}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor (PubMed:22408071). Involved in spikelet transition and development (Probable) (PubMed:22408071). Prevents lemma and palea elongation as well as grain growth (PubMed:28066457, PubMed:22408071). Required for seed shattering through specifying abscission zone (AZ) development (PubMed:22408071). {ECO:0000269|PubMed:22408071, ECO:0000269|PubMed:28066457, ECO:0000305|PubMed:26631749}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | LOC_Os04g55560.2 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Target of miR172 microRNA mediated cleavage, particularly during floral organ development (Probable). Induced by SH5 in spikelets abscission zones (AZ). Triggered by cold stress (PubMed:24923192). {ECO:0000269|PubMed:24923192, ECO:0000305|PubMed:26631749, ECO:0000305|PubMed:28066457}. |
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 | Os04g55560 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | FO082280 | 0.0 | FO082280.1 Oryza rufipogon (W1943) shattering abortion 1(SHAT1) gene: OR_W1943_CDS_SHAT1, PCR product. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015636848.1 | 0.0 | AP2-like ethylene-responsive transcription factor TOE3 isoform X1 | ||||
Swissprot | A0A0N7KJT8 | 0.0 | APL25_ORYSJ; APETALA2-like protein 5 | ||||
TrEMBL | A0A0E0PEW9 | 0.0 | A0A0E0PEW9_ORYRU; Uncharacterized protein | ||||
STRING | ORGLA04G0237800.1 | 0.0 | (Oryza glaberrima) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP5514 | 36 | 58 | Representative plant | OGRP497 | 17 | 84 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G36920.2 | 2e-90 | AP2 family protein |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os04g55560.2 |
Publications ? help Back to Top | |||
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