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 | XP_009102962.1 | ||||||||
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: 289aa MW: 33483.9 Da PI: 9.9359 | ||||||||
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 | 29.8 | 1e-09 | 14 | 38 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f+++ G C++GdrC++ H XP_009102962.1 14 DRVNCPFYFKIGACRHGDRCSRLHN 38 6899********************7 PP | |||||||
2 | zf-CCCH | 20.2 | 1.1e-06 | 142 | 165 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 +++ Cr + + C++G+ C+F+H+ XP_009102962.1 142 REATCRQYEE-NNCNRGGYCNFMHV 165 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 | 2.7E-7 | 14 | 38 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 1.4E-56 | 18 | 37 | IPR009145 | U2 auxiliary factor small subunit |
SuperFamily | SSF54928 | 1.33E-11 | 32 | 146 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
PRINTS | PR01848 | 1.4E-56 | 37 | 57 | IPR009145 | U2 auxiliary factor small subunit |
PROSITE profile | PS50102 | 8.552 | 44 | 138 | IPR000504 | RNA recognition motif domain |
Gene3D | G3DSA:3.30.70.330 | 2.1E-16 | 44 | 137 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
SMART | SM00361 | 0.0025 | 63 | 134 | IPR003954 | RNA recognition motif domain, eukaryote |
PRINTS | PR01848 | 1.4E-56 | 95 | 117 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 1.4E-56 | 122 | 146 | IPR009145 | U2 auxiliary factor small subunit |
SMART | SM00356 | 0.0087 | 140 | 166 | IPR000571 | Zinc finger, CCCH-type |
PROSITE profile | PS50103 | 11.695 | 140 | 167 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 1.4E-4 | 142 | 166 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 1.4E-56 | 157 | 169 | 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:0048573 | Biological Process | photoperiodism, flowering | ||||
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: 289 aa Download sequence Send to blast |
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNRP TISPTLLLSN MYQRPDMITP 60 GVDANGQPLD PRKIQEHFED FFEDLFEELG KXCDNLADHM IGNVYVQFKE EDQAAAALQA 120 LQGRFYSGRP IIADFSPVTD FREATCRQYE ENNCNRGGYC NFMHVKLVSR ELRRKLFGRS 180 RRRGSGSRSR SRSRSISPRH KREFDRRDPP RREFSHRERD SEFYRHGSGK RSSERSEKGD 240 RDGSRRRHGS PPPRRGGSPG GGREGSEERR ARIEQWNRER EEKEEGGGA |
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-64 | 1 | 182 | 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 | 172 | 182 | RRKLFGRSRRR |
2 | 254 | 262 | RGGSPGGGR |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Bra.32018 | 4e-94 | flower |
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 | XP_009102962.1 |
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-145 | 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 | 0.0 | PREDICTED: LOW QUALITY PROTEIN: splicing factor U2af small subunit A-like | ||||
Swissprot | Q9S709 | 1e-150 | U2AFA_ARATH; Splicing factor U2af small subunit A | ||||
TrEMBL | A0A1J3JZW6 | 1e-162 | A0A1J3JZW6_NOCCA; Splicing factor U2af small subunit A | ||||
STRING | XP_006415744.1 | 1e-156 | (Eutrema salsugineum) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G44785.1 | 6e-29 | C3H family protein |
Publications ? help Back to Top | |||
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