Basic information
GenBank ID	AB109892
Alias	PHYB
Organism	Rice (Oryza sativa)
Taxonomic identifier	[NCBI]
Function category	Signal transduction:Light
Effect for Senescence	promote
Gene Description	delayed senescence in the triple mutants (phyA phyB phyC)
Evidence	Genetic evidence:Mutant [Ref 1]
References	1: Jumtee K, Okazawa A, Harada K, Fukusaki E, Takano M, Kobayashi A Comprehensive metabolite profiling of phyA phyB phyC triple mutants to reveal their associated metabolic phenotype in rice leaves. J. Biosci. Bioeng. 2009 Aug;108(2):151-9
Gene Ontology	biological process detection of visible light protein-tetrapyrrole linkage red, far-red light phototransduction regulation of transcription, DNA-dependent molecular function photoreceptor activity protein homodimerization activity
Pathway	Reactome REACT_1046
Sequence	AB109892.1 | mRNA | CDS | Protein
miRNA Interaction
Details	target: AB109892.1  miRNA: osa-miR172d-5p miRNA: osa-miR172d-5p mfe: -31.7 kcal/mol  p-value: 0.001873  position: 1646  target 5' U     G G            U  3'             GUGAA U UGAUGGUGCUGC                 CACUU G ACUACCACGACG      miRNA  3'       A A               5'  target: AB109892.1  miRNA: osa-miR2925 miRNA: osa-miR2925 mfe: -38.3 kcal/mol  p-value: 0.006558  position: 246  target 5' C   C               C  3'             GCG GGCCCGCGG CGCCG                 UGC UCGGGCGCC GCGGU      miRNA  3'     U         G        5'  target: AB109892.1  miRNA: osa-miR529a miRNA: osa-miR529a mfe: -32.9 kcal/mol  p-value: 0.003558  position: 333  target 5' C               G    C  3'             GGGGGAGGGGGAGGG GCGG                 CUUCUUCUCUCUCCC UGUC      miRNA  3'                 A       5'
Ortholog Group
Ortholog Groups: OG5_136555	Accession Taxon NP_001117256 Arabidopsis thaliana NP_172428 Arabidopsis thaliana NP_179469 Arabidopsis thaliana NP_193360 Arabidopsis thaliana NP_193547 Arabidopsis thaliana NP_198433 Arabidopsis thaliana NP_001049910 ( AB109892 ) Oryza sativa Japonica Group NP_001051096 Oryza sativa Japonica Group NP_001051296 Oryza sativa Japonica Group e_gw1.13.2.1 Physcomitrella patens subsp. patens estExt_Genewise1.C_1640046 Physcomitrella patens subsp. patens estExt_Genewise1.C_2330008 Physcomitrella patens subsp. patens estExt_Genewise1.C_3270009 Physcomitrella patens subsp. patens estExt_Genewise1.C_470039 Physcomitrella patens subsp. patens estExt_fgenesh1_pg.C_910062 Physcomitrella patens subsp. patens estExt_gwp_gw1.C_810097 Physcomitrella patens subsp. patens 29693.m002076 Ricinus communis 29889.m003301 Ricinus communis 30128.m008997 Ricinus communis
Cross Link
Database Entry ID E-value Start End InterPro ID Description PIRSF PIRSF000084 0.0 36 1170 IPR012129 Phytochrome A/B/C/D/E Pfam PF08446 1.3E-39 105 226 IPR013654 PAS fold-2 SUPERFAMILY SSF55785 1.7E-18 110 227 IPR000014 PAS domain PRINTS PR01033 1.9E-110 174 196 IPR001294 Phytochrome SUPERFAMILY SSF55781 3.4E-55 239 439 No hit NA ProSiteProfiles PS50046 66.3 259 432 IPR016132 Phytochrome chromophore attachment domain SMART SM00065 3.5E-24 259 452 IPR003018 GAF domain Pfam PF01590 2.8E-39 262 442 IPR003018 GAF domain PRINTS PR01033 1.9E-110 274 293 IPR001294 Phytochrome PRINTS PR01033 1.9E-110 359 380 IPR001294 Phytochrome ProSitePatterns PS00245 NA 359 368 IPR013516 Phytochrome chromophore binding site SUPERFAMILY SSF55781 4.2E-59 450 628 No hit NA Pfam PF00360 1.5E-70 453 630 IPR013515 Phytochrome, central region PRINTS PR01033 1.9E-110 472 492 IPR001294 Phytochrome PRINTS PR01033 1.9E-110 557 576 IPR001294 Phytochrome PANTHER PTHR24423 1.2E-31 587 1163 No hit NA PRINTS PR01033 1.9E-110 590 608 IPR001294 Phytochrome ProSiteProfiles PS50112 23.2 661 732 IPR000014 PAS domain SMART SM00091 2.6E-9 663 730 IPR000014 PAS domain Pfam PF00989 3.0E-25 664 779 IPR013767 PAS fold PRINTS PR01033 1.9E-110 664 680 IPR001294 Phytochrome SUPERFAMILY SSF55785 7.3E-14 666 775 IPR000014 PAS domain TIGRFAM TIGR00229 1.8E-11 668 783 IPR000014 PAS domain PRINTS PR01033 1.9E-110 683 698 IPR001294 Phytochrome PRINTS PR01033 1.9E-110 757 774 IPR001294 Phytochrome PRINTS PR01033 1.9E-110 777 797 IPR001294 Phytochrome SMART SM00091 0.2 794 864 IPR000014 PAS domain Pfam PF00989 7.9E-23 795 914 IPR013767 PAS fold ProSiteProfiles PS50112 13.2 795 847 IPR000014 PAS domain SUPERFAMILY SSF55785 6.5E-10 809 913 IPR000014 PAS domain SUPERFAMILY SSF47384 2.2E-5 929 992 IPR009082 Signal transduction histidine kinase, homodimeric domain SMART SM00388 9.6E-9 936 1000 IPR003661 Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor domain Pfam PF00512 1.3E-8 940 999 IPR003661 Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor domain ProSiteProfiles PS50109 36.9 943 1161 IPR005467 Signal transduction histidine kinase, core SUPERFAMILY SSF55874 7.5E-15 1009 1157 IPR003594 Histidine kinase-like ATPase, ATP-binding domain Pfam PF02518 8.8E-11 1048 1155 IPR003594 Histidine kinase-like ATPase, ATP-binding domain SMART SM00387 1.5E-16 1048 1161 IPR003594 Histidine kinase-like ATPase, ATP-binding domain