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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 | Carubv10023740m | ||||||||
Common Name | CARUB_v10023740mg | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
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Family | C3H | ||||||||
Protein Properties | Length: 299aa MW: 33836 Da PI: 7.7188 | ||||||||
Description | C3H 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 | zf-CCCH | 27.6 | 5.2e-09 | 116 | 136 | 5 | 26 |
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C+ f++ G C++Gd+C FaHg Carubv10023740m 116 ACPEFRK-GSCRRGDTCEFAHG 136 7******.*************9 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00356 | 1.9E-5 | 111 | 137 | IPR000571 | Zinc finger, CCCH-type |
PROSITE profile | PS50103 | 13.15 | 112 | 138 | IPR000571 | Zinc finger, CCCH-type |
Gene3D | G3DSA:4.10.1000.10 | 8.5E-6 | 115 | 138 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 4.2E-7 | 116 | 136 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 27 | 146 | 169 | IPR000571 | Zinc finger, CCCH-type |
PROSITE profile | PS50103 | 6.296 | 146 | 170 | IPR000571 | Zinc finger, CCCH-type |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0061157 | Biological Process | mRNA destabilization | ||||
GO:0005737 | Cellular Component | cytoplasm | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0003727 | Molecular Function | single-stranded RNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 299 aa Download sequence Send to blast |
MMIGENNNRP HPTIHIPQWD PTVTISSPFS NGVNDYPHSP SPYLDSFASL HRYLPSNELT 60 EDSDEPSLTD EFRMYEFKIR RCSRGRSHDW TECPYAHPGE KARRRDPRKV HYSGTACPEF 120 RKGSCRRGDT CEFAHGVFEC WLHPSRYRTQ PCKDGTSCRR RICFFAHTTE QLRVLPDPDL 180 GFFSSKLATS PTSILVSPSF SPPSESPPLS PSAGEIIASM RKMQLNGGCS WSSPMRSGVV 240 RLPFSSSLRP IQAPTWPGIR EFEIWESEEE APAMEFVESG KELRAKMYAR LSRENSLG* |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Carubv10023740m |
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 | AC005395 | 0.0 | AC005395.3 Arabidopsis thaliana chromosome 2 clone F17H15 map B68, complete sequence. | |||
GenBank | AF370590 | 0.0 | AF370590.1 Arabidopsis thaliana putative CCCH-type zinc finger protein (At2g25900; F17H15.7) mRNA, complete cds. | |||
GenBank | AF375403 | 0.0 | AF375403.1 Arabidopsis thaliana At2g25900/F17H15.7 mRNA, complete cds. | |||
GenBank | AK117272 | 0.0 | AK117272.1 Arabidopsis thaliana At2g25900 mRNA for putative Cys3His zinc finger protein ATCTH (ATCTH), complete cds, clone: RAFL16-82-I02. | |||
GenBank | AK228868 | 0.0 | AK228868.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL16-19-E22. | |||
GenBank | AY129468 | 0.0 | AY129468.1 Arabidopsis thaliana At2g25900/F17H15.7 mRNA, complete cds. | |||
GenBank | CP002685 | 0.0 | CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006294702.1 | 0.0 | zinc finger CCCH domain-containing protein 23 | ||||
Swissprot | O82307 | 1e-168 | C3H23_ARATH; Zinc finger CCCH domain-containing protein 23 | ||||
TrEMBL | R0HQM9 | 0.0 | R0HQM9_9BRAS; Uncharacterized protein | ||||
STRING | XP_006294702.1 | 0.0 | (Capsella rubella) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM1249 | 27 | 88 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G25900.2 | 1e-157 | C3H family protein |
Link Out ? help Back to Top | |
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Phytozome | Carubv10023740m |
Entrez Gene | 17890145 |
Publications ? help Back to Top | |||
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