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 | Bostr.12659s0398.1.p | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Boechereae; Boechera
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Family | RAV | ||||||||
Protein Properties | Length: 359aa MW: 40222.2 Da PI: 9.335 | ||||||||
Description | RAV 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 | 40.1 | 9.1e-13 | 65 | 113 | 1 | 55 |
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r++lg+f +eeAa ++ a+++++g Bostr.12659s0398.1.p 65 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAASSYDIAARRFRG 113 89****9888.8*********3.....5*************************98 PP | |||||||
2 | B3 | 102.5 | 2.4e-32 | 193 | 300 | 1 | 96 |
EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkeg 77 f+k+ tpsdv+k++rlv+pk++ae+h + ++++++ + led++g++W+++++y+++s++yvltkGW++Fvk+++L++g Bostr.12659s0398.1.p 193 FEKAVTPSDVGKLNRLVIPKQYAEKHfplpemttatgmSPSPTKGVLINLEDTTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAG 281 89****************************99999988666789********************************************* PP -EEEEEE-SSSEE..EEEE CS B3 78 DfvvFkldgrsefelvvkv 96 D+v F+++ +++l++ + Bostr.12659s0398.1.p 282 DVVCFERSTGPDRQLYIDW 300 ******8766777777765 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF54171 | 1.96E-16 | 65 | 121 | IPR016177 | DNA-binding domain |
Pfam | PF00847 | 4.8E-7 | 65 | 113 | IPR001471 | AP2/ERF domain |
CDD | cd00018 | 7.75E-26 | 65 | 120 | No hit | No description |
Gene3D | G3DSA:3.30.730.10 | 3.0E-20 | 66 | 121 | IPR001471 | AP2/ERF domain |
PROSITE profile | PS51032 | 19.968 | 66 | 121 | IPR001471 | AP2/ERF domain |
SMART | SM00380 | 2.1E-29 | 66 | 127 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:2.40.330.10 | 6.0E-40 | 187 | 305 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 7.98E-32 | 192 | 295 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 6.16E-30 | 192 | 289 | No hit | No description |
PROSITE profile | PS50863 | 14.452 | 193 | 304 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 9.6E-29 | 193 | 300 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 7.8E-26 | 193 | 304 | IPR003340 | B3 DNA binding 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:0048573 | Biological Process | photoperiodism, flowering | ||||
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: 359 aa Download sequence Send to blast |
MDYSCVDDSS TASESLSIST PKTTEKLSSP PAKTMRLYRM GSGGSSVVLD LENGVETESR 60 KLPSSKYKGV VPQPNGRWGA QIYEKHQRVW LGTFNEEEEA ASSYDIAARR FRGRDAVTNF 120 KSLTTDGDDQ NDAESAFLDA HSKAEIVDML RKHTYADELE QSKRKFVNGN GKRYGSEMTM 180 SNDAVSRARD VLFEKAVTPS DVGKLNRLVI PKQYAEKHFP LPEMTTATGM SPSPTKGVLI 240 NLEDTTGKVW RFRYSYWNSS QSYVLTKGWS RFVKEKNLRA GDVVCFERST GPDRQLYIDW 300 KVRSSPVQTV VRLFGVNIFN VTNDKPNDVA VQCGGKKRSR EDDLFSLRCS KQAIINIL* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1wid_A | 2e-56 | 190 | 304 | 11 | 118 | DNA-binding protein RAV1 |
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Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269|PubMed:18718758}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00024 | PBM | Transfer from AT1G25560 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Bostr.12659s0398.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AC079281 | 0.0 | AC079281.4 Arabidopsis thaliana chromosome 1 BAC F2J7 genomic sequence, complete sequence. | |||
GenBank | AY091069 | 0.0 | AY091069.1 Arabidopsis thaliana putative DNA-binding protein RAV2 (At1g25560) mRNA, complete cds. | |||
GenBank | AY122941 | 0.0 | AY122941.1 Arabidopsis thaliana putative DNA-binding protein RAV2 (At1g25560) mRNA, complete cds. | |||
GenBank | CP002684 | 0.0 | CP002684.1 Arabidopsis thaliana chromosome 1 sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_010460355.1 | 0.0 | PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1-like isoform X3 | ||||
Swissprot | Q9C6M5 | 0.0 | RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1 | ||||
TrEMBL | A0A178W8G8 | 0.0 | A0A178W8G8_ARATH; TEM1 | ||||
STRING | Bostr.12659s0398.1.p | 0.0 | (Boechera stricta) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM848 | 27 | 121 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G25560.1 | 0.0 | RAV family protein |
Link Out ? help Back to Top | |
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Phytozome | Bostr.12659s0398.1.p |