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 | Lj3g3v3006550.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
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Family | C3H | ||||||||
Protein Properties | Length: 283aa MW: 33222.8 Da PI: 9.9582 | ||||||||
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 | 1.9e-09 | 14 | 37 | 2 | 25 |
-S---SGGGGTS--TTTTT-SS-S CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaH 25 ++++C+f+++ G C++GdrC++ H Lj3g3v3006550.1 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 | 4.0E-7 | 14 | 37 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 1.7E-60 | 18 | 37 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 1.7E-60 | 37 | 57 | IPR009145 | U2 auxiliary factor small subunit |
CDD | cd12539 | 1.46E-61 | 44 | 145 | No hit | No description |
Gene3D | G3DSA:3.30.70.330 | 1.7E-21 | 44 | 145 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
PROSITE profile | PS50102 | 9.661 | 44 | 146 | IPR000504 | RNA recognition motif domain |
PRINTS | PR01848 | 1.7E-60 | 75 | 90 | IPR009145 | U2 auxiliary factor small subunit |
SuperFamily | SSF54928 | 6.85E-15 | 77 | 149 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
PRINTS | PR01848 | 1.7E-60 | 103 | 125 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 1.7E-60 | 130 | 154 | IPR009145 | U2 auxiliary factor small subunit |
SMART | SM00356 | 0.48 | 148 | 174 | IPR000571 | Zinc finger, CCCH-type |
PROSITE profile | PS50103 | 10.211 | 148 | 175 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 1.7E-60 | 165 | 177 | 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: 283 aa Download sequence Send to blast |
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHTKP SISPTLLLSN MYQRPDIVTP 60 GVDAQGQPID PRKIQTHFDD FYQDLFDELS KYGRLQTLNV CDNLADHMVG NVYAQFREEE 120 HAAEALKNLT GRFYAGNPII VDFSPVTDFR EATCRQYEED SCNRGGYCNF MHLKKISREL 180 RRELFGMDNR GRHGRSRSPD RHRSNEDRSP RGHSRKYDER SHHHESRGRR RRSNSPGHRR 240 GRSRSPRGSR ERRPARDGSE ERRARIEQWN REREEQKHES KVS |
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-70 | 1 | 184 | 1 | 179 | 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 | 219 | 231 | RSHHHESRGRRRR |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Lja.11452 | 0.0 | cell culture| floral bud| protoplast |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Necessary for the splicing of pre-mRNA. {ECO:0000250}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Lj3g3v3006550.1 |
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 | AP010455 | 0.0 | AP010455.1 Lotus japonicus genomic DNA, chromosome 3, clone: LjT04F17, TM0701, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_007015960.1 | 1e-160 | PREDICTED: splicing factor U2af small subunit B | ||||
Refseq | XP_017983739.1 | 1e-160 | PREDICTED: splicing factor U2af small subunit B | ||||
Swissprot | Q9ZQW8 | 1e-125 | U2AFA_ORYSJ; Splicing factor U2af small subunit A | ||||
TrEMBL | A0A4D6N6P7 | 1e-160 | A0A4D6N6P7_VIGUN; Splicing factor U2AF a subunit | ||||
STRING | EOY33579 | 1e-160 | (Theobroma cacao) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF1251 | 8 | 10 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G10320.1 | 9e-38 | C3H family protein |
Publications ? help Back to Top | |||
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