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 | Niben101Scf06350g00002.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
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Family | C3H | ||||||||
Protein Properties | Length: 114aa MW: 13058.1 Da PI: 9.4016 | ||||||||
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 | 30.8 | 4.8e-10 | 14 | 37 | 2 | 25 |
-S---SGGGGTS--TTTTT-SS-S CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaH 25 ++++C+f+++ G C++GdrC++ H Niben101Scf06350g00002.1 14 DRVNCPFYFKIGACRHGDRCSRLH 37 6899******************** PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50103 | 13.112 | 12 | 40 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 0.0065 | 13 | 39 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 1.0E-7 | 14 | 37 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 6.3E-19 | 18 | 37 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 6.3E-19 | 37 | 57 | IPR009145 | U2 auxiliary factor small subunit |
PROSITE profile | PS50103 | 8.559 | 43 | 72 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 85 | 48 | 71 | IPR000571 | Zinc finger, CCCH-type |
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:0003723 | Molecular Function | RNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 114 aa Download sequence Send to blast |
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHTKP SISPTLLLSN MYQRPIGACR 60 HGDRCSRLHT KPSISPTLLL SDMYQRPDMI TPGVDVHGQP IDPRKMQEHF ERRV |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4yh8_A | 1e-23 | 1 | 56 | 1 | 56 | Splicing factor U2AF 23 kDa subunit |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Necessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_016490293.1 | 1e-45 | PREDICTED: splicing factor U2af small subunit B-like | ||||
Refseq | XP_016490299.1 | 1e-45 | PREDICTED: splicing factor U2af small subunit B-like | ||||
Refseq | XP_016490305.1 | 1e-45 | PREDICTED: splicing factor U2af small subunit B-like | ||||
Swissprot | Q9S709 | 6e-43 | U2AFA_ARATH; Splicing factor U2af small subunit A | ||||
TrEMBL | A0A1S4BN71 | 3e-44 | A0A1S4BN71_TOBAC; splicing factor U2af small subunit B-like | ||||
STRING | XP_009759515.1 | 6e-45 | (Nicotiana sylvestris) | ||||
STRING | XP_009621463.1 | 6e-45 | (Nicotiana tomentosiformis) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA17869 | 3 | 4 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G44785.1 | 2e-32 | C3H family protein |
Publications ? help Back to Top | |||
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