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 | Medtr1g035130.6 | ||||||||
Common Name | MTR_1g035130 | ||||||||
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; Trifolieae; Medicago
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Family | C3H | ||||||||
Protein Properties | Length: 280aa MW: 33066.7 Da PI: 10.0825 | ||||||||
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 | 9.9e-10 | 14 | 38 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f+++ G C++GdrC++ H Medtr1g035130.6 14 DRVNCPFYFKIGACRHGDRCSRLHN 38 6899********************7 PP | |||||||
2 | zf-CCCH | 20.8 | 6.6e-07 | 150 | 173 | 2 | 26 |
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 +++ Cr + + C++G+ C+F+H+ Medtr1g035130.6 150 REATCRQYEE-NSCNRGGYCNFMHV 173 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 | 2.6E-7 | 14 | 38 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 3.4E-63 | 18 | 37 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 3.4E-63 | 37 | 57 | IPR009145 | U2 auxiliary factor small subunit |
CDD | cd12539 | 8.65E-62 | 44 | 145 | No hit | No description |
PROSITE profile | PS50102 | 10.019 | 44 | 146 | IPR000504 | RNA recognition motif domain |
Gene3D | G3DSA:3.30.70.330 | 1.2E-22 | 44 | 144 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
PRINTS | PR01848 | 3.4E-63 | 75 | 90 | IPR009145 | U2 auxiliary factor small subunit |
SuperFamily | SSF54928 | 1.05E-14 | 77 | 149 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
PRINTS | PR01848 | 3.4E-63 | 103 | 125 | IPR009145 | U2 auxiliary factor small subunit |
PRINTS | PR01848 | 3.4E-63 | 130 | 154 | IPR009145 | U2 auxiliary factor small subunit |
PROSITE profile | PS50103 | 11.629 | 148 | 175 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 0.021 | 148 | 174 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 7.9E-5 | 150 | 174 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 3.4E-63 | 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: 280 aa Download sequence Send to blast |
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNRP TISPTLLLSN MYQRPDIITP 60 GVDPNGQPID PRQIQQHFED FYEDIFTELS KFGYVETLNV CDNLADHMIG NVYVLFKEED 120 HAAAALASLR GRFYEGRPIL ADFSPVTDFR EATCRQYEEN SCNRGGYCNF MHVKKIGREL 180 RRKLFSSQRS RSRSRSNSPR RRRRSRSRER ERPRDRDYDS RGRRSSDRDR VRDGDRDRER 240 KRDSRDRDGG RRNGREAREG SEERRARIEQ WNREKEEKP* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4yh8_A | 7e-74 | 1 | 189 | 1 | 184 | 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 | 180 | 202 | RRKLFSSQRSRSRSRSNSPRRRR |
2 | 201 | 209 | RRRSRSRER |
3 | 205 | 215 | RSRERERPRDR |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Mtr.8388 | 0.0 | flower| leaf| root| stem |
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 | Medtr1g035130.6 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AC140774 | 0.0 | AC140774.7 Medicago truncatula clone mth2-5e11, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_024634157.1 | 0.0 | splicing factor U2af small subunit B isoform X2 | ||||
Swissprot | Q9FMY5 | 1e-137 | U2AFB_ARATH; Splicing factor U2af small subunit B | ||||
TrEMBL | G7IA30 | 0.0 | G7IA30_MEDTR; Putative transcription factor C3H family | ||||
STRING | AES59941 | 1e-142 | (Medicago truncatula) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G10320.1 | 4e-35 | C3H family protein |
Link Out ? help Back to Top | |
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Phytozome | Medtr1g035130.6 |
Entrez Gene | 11421625 |
Publications ? help Back to Top | |||
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