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 | LOC_Os12g39400.1 | ||||||||
Common Name | LOC4352653, Os12g0583700, OSNPB_120583700 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 248aa MW: 24946 Da PI: 7.8031 | ||||||||
Description | C2H2 family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-C2H2 | 11.9 | 0.0007 | 91 | 113 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ Cgk F + L H +H LOC_Os12g39400.1 91 HRCSVCGKAFASYQALGGHKASH 113 79**********99998888877 PP | |||||||
2 | zf-C2H2 | 11 | 0.0014 | 155 | 174 | 1 | 20 |
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++C+ Cgk F++ L H LOC_Os12g39400.1 155 HECNVCGKAFPTGQALGGHK 174 78*********988886665 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF13912 | 5.6E-13 | 91 | 115 | IPR007087 | Zinc finger, C2H2 |
PROSITE profile | PS50157 | 11.365 | 91 | 118 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.023 | 91 | 113 | IPR015880 | Zinc finger, C2H2-like |
SuperFamily | SSF57667 | 4.54E-10 | 91 | 113 | No hit | No description |
PROSITE pattern | PS00028 | 0 | 93 | 113 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 4.54E-10 | 150 | 177 | No hit | No description |
Pfam | PF13912 | 2.5E-13 | 154 | 179 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 6.5E-5 | 155 | 177 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.388 | 155 | 177 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.063 | 155 | 177 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 157 | 177 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0006979 | Biological Process | response to oxidative stress | ||||
GO:0009409 | Biological Process | response to cold | ||||
GO:0009414 | Biological Process | response to water deprivation | ||||
GO:0009611 | Biological Process | response to wounding | ||||
GO:0009644 | Biological Process | response to high light intensity | ||||
GO:0009651 | Biological Process | response to salt stress | ||||
GO:0009737 | Biological Process | response to abscisic acid | ||||
GO:0010117 | Biological Process | photoprotection | ||||
GO:0010200 | Biological Process | response to chitin | ||||
GO:0015979 | Biological Process | photosynthesis | ||||
GO:0035264 | Biological Process | multicellular organism growth | ||||
GO:0045892 | Biological Process | negative regulation of transcription, DNA-templated | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0043565 | Molecular Function | sequence-specific DNA binding | ||||
GO:0044212 | Molecular Function | transcription regulatory region DNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Plant Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PO Term | PO Category | PO Description | ||||
PO:0009089 | anatomy | endosperm | ||||
PO:0007042 | developmental stage | whole plant fruit formation stage | ||||
PO:0007633 | developmental stage | endosperm development stage |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 248 aa Download sequence Send to blast |
MAVEAVLEAS RSSSEEEAEV IVTHGGGGGG GGGGGQVEGW GKRKRSRRRR PQLPPSEEEY 60 LALCLLMLAR GRRDGDDVAA SASAAAAAVE HRCSVCGKAF ASYQALGGHK ASHRKPPPPA 120 MVDDDEVVVE TKPAAIATPS SSASGVSGGG GGRAHECNVC GKAFPTGQAL GGHKRCHYDG 180 TIGSAAGAGA SKPAAKTTVA VAASRGFDLN LPALPDVAAA ADQRCAAEDD EVLSPLAFKK 240 PRLMIPA* |
Expression -- Microarray ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | ID | |||||
Expression Atlas | Q2QN06 |
Expression -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: During germination, abundant up to fourteen hours after imbibition. Levels decrease slightly after this and then gradually increase again. {ECO:0000269|PubMed:8223628}. | |||||
Uniprot | TISSUE SPECIFICITY: Highest levels in the root apex of wheat seedlings, lowest levels in leaf proximal region. {ECO:0000269|PubMed:8223628}. |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Potential transcription factor which binds the nonamer motif 5'-CATCCAACG-3'. Possibly involved in regulating transcription of the histone H3 and H4 genes. {ECO:0000269|PubMed:8223628}. |
Binding Motif ? help Back to Top | |||
---|---|---|---|
Motif ID | Method | Source | Motif file |
MP00162 | DAP | Transfer from AT1G27730 | Download |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | LOC_Os12g39400.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Phenotype -- Mutation ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | ID | |||||
RiceGE | Os12g39400 |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AK288963 | 0.0 | AK288963.1 Oryza sativa Japonica Group cDNA, clone: J090084H09, full insert sequence. | |||
GenBank | AL772427 | 0.0 | AL772427.4 Oryza sativa chromosome 12, . BAC OJ1260_B01 of library Monsanto from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence. | |||
GenBank | AP014968 | 0.0 | AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence. | |||
GenBank | CT841608 | 0.0 | CT841608.1 Oryza rufipogon (W1943) cDNA clone: ORW1943C105H24, full insert sequence. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_015620192.1 | 1e-176 | zinc finger protein 1 | ||||
Swissprot | Q42430 | 9e-46 | ZFP1_WHEAT; Zinc finger protein 1 | ||||
TrEMBL | Q2QN06 | 1e-174 | Q2QN06_ORYSJ; Os12g0583700 protein | ||||
STRING | OS12T0583700-00 | 1e-175 | (Oryza sativa) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP1022 | 36 | 113 | Representative plant | OGRP131 | 15 | 149 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT3G49930.1 | 2e-28 | C2H2 family protein |
Link Out ? help Back to Top | |
---|---|
Phytozome | LOC_Os12g39400.1 |
Entrez Gene | 4352653 |
Publications ? help Back to Top | |||
---|---|---|---|
|