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_Os03g56950.1 | ||||||||
Common Name | LOC4334324 | ||||||||
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 | bHLH | ||||||||
Protein Properties | Length: 422aa MW: 45035.1 Da PI: 6.8387 | ||||||||
Description | bHLH family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | HLH | 55.6 | 9.8e-18 | 235 | 281 | 4 | 55 |
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn ErrRRdriN+++ L+el+P++ K +Ka+iL +A+eY+ksLq LOC_Os03g56950.1 235 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASILDEAIEYLKSLQ 281 6*************************8.....6******************9 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
CDD | cd00083 | 1.98E-18 | 226 | 285 | No hit | No description |
SuperFamily | SSF47459 | 2.22E-21 | 229 | 296 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
PROSITE profile | PS50888 | 18.635 | 231 | 280 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
Pfam | PF00010 | 6.0E-15 | 235 | 281 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
Gene3D | G3DSA:4.10.280.10 | 4.3E-22 | 235 | 290 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
SMART | SM00353 | 6.2E-18 | 237 | 286 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0006783 | Biological Process | heme biosynthetic process | ||||
GO:0009740 | Biological Process | gibberellic acid mediated signaling pathway | ||||
GO:0009959 | Biological Process | negative gravitropism | ||||
GO:0010100 | Biological Process | negative regulation of photomorphogenesis | ||||
GO:0010161 | Biological Process | red light signaling pathway | ||||
GO:0010187 | Biological Process | negative regulation of seed germination | ||||
GO:0015995 | Biological Process | chlorophyll biosynthetic process | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0010313 | Molecular Function | phytochrome binding | ||||
GO:0042802 | Molecular Function | identical protein binding | ||||
GO:0046983 | Molecular Function | protein dimerization activity |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 422 aa Download sequence Send to blast |
MDGNARSAAN QTKQIVTDNE LVELLWHNGG VVAQPQAAQA RVVSSSGRGQ SASVLTGDDT 60 ETAAWFPDTL DDALEKDLYT QLWRSVTGDA FPAAAAAGPS SHHAPPPDLP PPAARPPMRS 120 GIGSSWTGDI CSAFCGSNHI PETAAQRCRD AGAALPPERP RRSSTHDGAG TSSSGGSGSN 180 FGASGLPSES ASAHKRKGRE DSDSRSEDAE CEATEETKSS SRRYGSKRRT RAAEVHNLSE 240 RRRRDRINEK MRALQELIPH CNKTDKASIL DEAIEYLKSL QMQVQIMWMT TGMAPMMFPG 300 AHQFMPPMAV GMNSACMPAA QGLSHMSRLP YMNHSMPNHI PLNSSPAMNP MNVANQMQNI 360 QLREASNPFL HPDGWQTVPP QVSGPYASGP QVAQQNQIPK ASASTVLPNS GAEQPPTSDG 420 I* |
Nucleic Localization Signal ? help Back to Top | |||
---|---|---|---|
No. | Start | End | Sequence |
1 | 226 | 243 | KRRTRAAEVHNLSERRRR |
2 | 239 | 244 | ERRRRD |
Expression -- UniGene ? help Back to Top | ||||||
---|---|---|---|---|---|---|
UniGene ID | E-value | Expressed in | ||||
Os.5178 | 0.0 | flower| leaf| panicle| seed| stem |
Expression -- Microarray ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | ID | |||||
Expression Atlas | Q10CH6 |
Expression -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in the node portions of the stem. Expressed in the leaves and the basal part of shoots. {ECO:0000269|PubMed:22984180}. |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Transcription factor that may act as negative regulator of phyB-dependent light signal transduction (PubMed:17485859). Transcription activator that acts as positive regulator of internode elongation. May function via regulation of cell wall-related genes. May play a role in a drought-associated growth-restriction mechanism in response to drought stress (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}. |
Binding Motif ? help Back to Top | |||
---|---|---|---|
Motif ID | Method | Source | Motif file |
MP00074 | ChIP-chip | Transfer from AT2G20180 | Download |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | LOC_Os03g56950.1 |
Regulation -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | INDUCTION: Induced by light in dark-grown etiolated seedlings (PubMed:17485859). Circadian oscillation under 12 h light/12 h dark cycle conditions, with peaks in the middle of the light period (PubMed:17485859, PubMed:22984180). Down-regulated by cold and drought stresses (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Phenotype -- Mutation ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | ID | |||||
RiceGE | Os03g56950 |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AK105637 | 0.0 | AK105637.1 Oryza sativa Japonica Group cDNA clone:001-200-E02, full insert sequence. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_015633322.1 | 0.0 | transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X2 | ||||
Swissprot | Q10CH5 | 0.0 | PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13 | ||||
TrEMBL | Q10CH6 | 0.0 | Q10CH6_ORYSJ; Helix-loop-helix DNA-binding domain containing protein, expressed | ||||
STRING | ORGLA03G0333400.1 | 0.0 | (Oryza glaberrima) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP3174 | 34 | 82 | Representative plant | OGRP258 | 16 | 128 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT1G09530.2 | 3e-32 | phytochrome interacting factor 3 |
Link Out ? help Back to Top | |
---|---|
Phytozome | LOC_Os03g56950.1 |
Entrez Gene | 4334324 |
Publications ? help Back to Top | |||
---|---|---|---|
|