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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 | GSBRNA2T00028412001 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
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Family | C3H | ||||||||
Protein Properties | Length: 244aa MW: 28145.2 Da PI: 11.0838 | ||||||||
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 | 30.1 | 8.2e-10 | 14 | 38 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f+++ G C++GdrC++ H GSBRNA2T00028412001 14 DRVNCPFYFKIGACRHGDRCSRLHN 38 6899********************7 PP | |||||||
2 | zf-CCCH | 20.5 | 8.4e-07 | 96 | 119 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 +++ Cr + + C++G+ C+F+H+ GSBRNA2T00028412001 96 REATCRQYEE-NNCNRGGYCNFMHV 119 6789**9999.*************8 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50103 | 13.065 | 12 | 40 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 0.0068 | 13 | 39 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 2.1E-7 | 14 | 38 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 1.9E-21 | 18 | 37 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 1.9E-21 | 37 | 57 | IPR009145 | U2 auxiliary factor small subunit |
Gene3D | G3DSA:3.30.70.330 | 3.9E-4 | 62 | 91 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
SuperFamily | SSF54928 | 1.5E-5 | 62 | 100 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
SMART | SM00356 | 0.0087 | 94 | 120 | IPR000571 | Zinc finger, CCCH-type |
PROSITE profile | PS50103 | 11.695 | 94 | 121 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 1.1E-4 | 96 | 120 | 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: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: 244 aa Download sequence Send to blast |
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNRP TISPTLLLSN MYQRPDMITP 60 GFKEEDQAAA ALQALQGRFY SGRPIIADFS PVTDFREATC RQYEENNCNR GGYCNFMHVK 120 LVSRELRRKL FGRSRRRGSG SRSRSRSRSI SPRHKREFDR RDPPRREFSH RERDSEFYRH 180 GSGKRSSERS EKGDRDGSRR RHGSPPPRRG GSPGGGREGS EERRARIEQW NREREEKEEG 240 GGA* |
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-42 | 1 | 136 | 1 | 185 | Splicing factor U2AF 23 kDa subunit |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 126 | 136 | RRKLFGRSRRR |
2 | 208 | 216 | RGGSPGGGR |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Bna.20580 | 0.0 | flower| leaf |
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}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | GSBRNA2T00028412001 |
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 | AK353171 | 1e-125 | AK353171.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-26-L07. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009102962.1 | 1e-119 | PREDICTED: LOW QUALITY PROTEIN: splicing factor U2af small subunit A-like | ||||
Swissprot | Q9S709 | 2e-85 | U2AFA_ARATH; Splicing factor U2af small subunit A | ||||
TrEMBL | M4EMN7 | 1e-174 | M4EMN7_BRARP; Uncharacterized protein | ||||
STRING | Bra030057.1-P | 1e-175 | (Brassica rapa) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G44785.1 | 2e-29 | C3H family protein |
Publications ? help Back to Top | |||
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