PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | Carubv10011207m | ||||||||
Common Name | CARUB_v10011207mg | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
|
||||||||
Family | C3H | ||||||||
Protein Properties | Length: 395aa MW: 43711.6 Da PI: 8.0331 | ||||||||
Description | C3H family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-CCCH | 33.4 | 7.5e-11 | 128 | 151 | 3 | 26 |
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+ f+r+G C++Gd C FaHg Carubv10011207m 128 GEVCPEFRRSGDCSRGDDCEFAHG 151 689********************9 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF90229 | 4.19E-6 | 125 | 155 | IPR000571 | Zinc finger, CCCH-type |
PROSITE profile | PS50103 | 13.535 | 125 | 153 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 8.5E-6 | 125 | 152 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 2.2E-8 | 129 | 151 | IPR000571 | Zinc finger, CCCH-type |
Gene3D | G3DSA:4.10.1000.10 | 1.4E-6 | 129 | 153 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 2.5 | 161 | 184 | IPR000571 | Zinc finger, CCCH-type |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0010187 | Biological Process | negative regulation of seed germination | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 395 aa Download sequence Send to blast |
MDVVCTEHQM RKPTVEIPPR KLLLSSKSFP ASDSSSPRSP RKHNWNKSNK ITSEHEEDED 60 NNNNNREIKE YCYDSDSDDP YASDHFRMFE FKIRRCTRSR SHDWTDCPFA HPGEKARRRD 120 PRRFQYSGEV CPEFRRSGDC SRGDDCEFAH GVFECWLHPI RYRTEACKDG KHCKRKVCFF 180 AHSPRQLRVL PPENVSGGSG SPSPAAKNPC CLFCSSSPTS TLLGNLSHLS RSPSLSPPMS 240 PAHKAAAFSR LRNRAASAVS AAAAAGSVNY KDVLSELVNS LDSMSLVEAL QVGTSSPVTT 300 PVSAAAAAFA SSCGLSNQRL HLQQQQPSSP LQFSLSPSTP SYLTTSSPAN FFGDEFTPRR 360 RQMNNDFTTV RDKTSFEDGS CGDPDLGWVN DLLT* |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Probable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269|PubMed:18487351}. |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | Carubv10011207m |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AC003027 | 0.0 | AC003027.1 Arabidopsis thaliana chromosome I BAC F21M11 genomic sequence, complete sequence. | |||
GenBank | AK117219 | 0.0 | AK117219.1 Arabidopsis thaliana At1g03790 mRNA for unknown protein, complete cds, clone: RAFL16-76-P06. | |||
GenBank | BT005342 | 0.0 | BT005342.1 Arabidopsis thaliana At1g03790 mRNA, complete cds. | |||
GenBank | CP002684 | 0.0 | CP002684.1 Arabidopsis thaliana chromosome 1 sequence. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_006304480.1 | 0.0 | zinc finger CCCH domain-containing protein 2 | ||||
Swissprot | Q9ZWA1 | 0.0 | C3H2_ARATH; Zinc finger CCCH domain-containing protein 2 | ||||
TrEMBL | R0IK67 | 0.0 | R0IK67_9BRAS; Uncharacterized protein | ||||
STRING | XP_006304480.1 | 0.0 | (Capsella rubella) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM2987 | 27 | 66 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT1G03790.1 | 1e-159 | C3H family protein |
Link Out ? help Back to Top | |
---|---|
Phytozome | Carubv10011207m |
Entrez Gene | 17899485 |
Publications ? help Back to Top | |||
---|---|---|---|
|