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 | MDP0000459204 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
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Family | C3H | ||||||||
Protein Properties | Length: 218aa MW: 25601.8 Da PI: 11.1633 | ||||||||
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 | 20 | 1.2e-06 | 43 | 66 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 +++ Cr + + C++G+ C+F+H MDP0000459204 43 REATCRQYEE-NVCNRGGYCNFMHL 66 6789**9999.*************6 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.30.70.330 | 2.2E-9 | 2 | 38 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
SuperFamily | SSF54928 | 8.42E-10 | 2 | 42 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
PRINTS | PR01848 | 2.4E-16 | 23 | 47 | IPR009145 | U2 auxiliary factor small subunit |
PROSITE profile | PS50103 | 10.465 | 41 | 68 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 1.7E-4 | 43 | 66 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 2.4E-16 | 58 | 70 | IPR009145 | U2 auxiliary factor small subunit |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0000398 | Biological Process | mRNA splicing, via spliceosome | ||||
GO:0089701 | Cellular Component | U2AF | ||||
GO:0000166 | Molecular Function | nucleotide binding | ||||
GO:0003723 | Molecular Function | RNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 218 aa Download sequence Send to blast |
MVGNVYVQFR EEEHAQAALQ NLTGRFYAGR PIIVDFSPVT DFREATCRQY EENVCNRGGY 60 CNFMHLKKIS RELRRRLFGR NKRRHSRSRS RSRSPQRHHR GGYQERPHGG RGFGRRGEDD 120 RDHRFNDKSR RPRSRSPGRR GRSRSPVGAG GRRRSPPARE SSAERRAKIE QWNKEREQVD 180 SGNKYDDNNN SNNQDDQWNG SAENNDQYYD DPHQQQQ* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4yh8_A | 3e-24 | 1 | 77 | 103 | 179 | Splicing factor U2AF 23 kDa subunit |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Mdo.15546 | 0.0 | bud| fruit| leaf| root| stem |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Necessary for the splicing of pre-mRNA. {ECO:0000250}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009353013.1 | 1e-156 | PREDICTED: splicing factor U2af small subunit B-like | ||||
Refseq | XP_028948934.1 | 1e-156 | splicing factor U2af small subunit B-like | ||||
Swissprot | Q9ZQW8 | 1e-45 | U2AFA_ORYSJ; Splicing factor U2af small subunit A | ||||
TrEMBL | A0A498HXU4 | 1e-155 | A0A498HXU4_MALDO; Uncharacterized protein | ||||
STRING | XP_009353013.1 | 1e-155 | (Pyrus x bretschneideri) | ||||
STRING | XP_008391802.1 | 1e-156 | (Malus domestica) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF21893 | 3 | 3 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G10320.1 | 5e-10 | C3H family protein |
Link Out ? help Back to Top | |
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Phytozome | MDP0000459204 |
Publications ? help Back to Top | |||
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