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 | Neem_20816_f_2 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
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Family | C3H | ||||||||
Protein Properties | Length: 137aa MW: 15925.5 Da PI: 9.6025 | ||||||||
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 | 31.3 | 3.5e-10 | 14 | 38 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f+++ G C++GdrC++ H Neem_20816_f_2 14 DRVNCPFYFKIGACRHGDRCSRLHN 38 6899********************7 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 | 9.1E-8 | 14 | 38 | IPR000571 | Zinc finger, CCCH-type |
SuperFamily | SSF90229 | 8.77E-5 | 16 | 41 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 6.1E-29 | 18 | 37 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 6.1E-29 | 37 | 57 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 6.1E-29 | 75 | 90 | 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:0003723 | Molecular Function | RNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 137 aa Download sequence Send to blast |
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNRP TISPTLLLSN MYQRPDMITP 60 GVDAQGQPID PRKIQEHFED FYEDIFRSSQ DPGTFRRLLR GYLRRAHLKR KIKQPPLCKL 120 CKEDFTLAVQ LLPISLP |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4yh8_A | 4e-27 | 1 | 99 | 1 | 94 | 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_015575795.1 | 1e-58 | splicing factor U2af small subunit B | ||||
Refseq | XP_015575808.1 | 1e-58 | splicing factor U2af small subunit B | ||||
Refseq | XP_015575814.1 | 1e-58 | splicing factor U2af small subunit B | ||||
Refseq | XP_015575820.1 | 1e-58 | splicing factor U2af small subunit B | ||||
Swissprot | Q9S709 | 2e-57 | U2AFA_ARATH; Splicing factor U2af small subunit A | ||||
TrEMBL | B9R8U8 | 3e-57 | B9R8U8_RICCO; U2 snrnp auxiliary factor, small subunit, putative | ||||
STRING | XP_002510741.1 | 5e-58 | (Ricinus communis) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM21123 | 4 | 4 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G44785.1 | 4e-31 | C3H family protein |
Publications ? help Back to Top | |||
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