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A Graph Search-Empowered Integrative Database of Arabidopsis Signaling Transduction, Metabolism and Gene Regulation Networks   
Location:  Home > Details for node Phytochrome A (PhyA)
Type: Protein GRN ID: np06062 Name: Phytochrome A (PhyA)
Annotation: PHYA, FHY2, FRE1, HY8 | phytochrome A
Gene Locus: AT1G09570
References:
  • Oh E, Kim J, Park E, Kim JI, Kang C, Choi G. PIL5, a phytochrome-interacting basic helix-loop-helix protein, is a key negative regulator of seed germination in Arabidopsis thaliana. Plant Cell. 2004 Nov;16(11):3045-58. Epub 2004 Oct 14. PubMed PMID: 15486102; PubMed Central PMCID: PMC527197.
 
Pathways: Gibberellins;  Jasmonates 
Gene Expression (Affy ATH1 probeset): 264508_at    
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 Protein modification
 Protein-protein interaction
        also include predicted relationship
 Compound-protein interaction
 TF-target gene regulation
 Small RNA-target regulation
        also include predicted relationship
 Carrier and transported molecule
 Catalytic chemical reaction
 Co-expressed gene pair
        with mutual information value >

  Ignore nodes having > relationships
 
Relationship type:  protein modification     catalytic chemical reaction     protein-protein interaction    
compound-protein interaction     TF-target gene regulation     small RNA-target regulation    
co-expressed gene pair     carrier and transported molecule     family/complex and member
Relationship evidence:  Solid line: validated          Dashed line: predicted
Relationship direction: Arrow: positive          T shape: negative          None arrow: unknown or n/a
Hormone association: Thicker line: hormone related relationship         : hormone related Node
Node type:  Transcription factor or transcriptional regulator       Compound       Kinase
 Small regulatory RNA (miRNA & ta-siRNA)       Other nodes
No. Path
2 Phytochrome A (PhyA)  --  interacts with  --  PIF4
3 Phytochrome A (PhyA)  --  interacts with  --  FIN219; JAR1
4 Phytochrome A (PhyA)  --  interacts with  --  SPA1
5 Phytochrome A (PhyA)  --  interacts with  --  FHY1; FRY1; PAT3
6 Phytochrome A (PhyA)  --  interacts with  --  COP1
7 Phytochrome A (PhyA)  --  interacts with  --  pil5
8 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2
9 Phytochrome A (PhyA)  --  interacts with  --  ATCRY1; BLU1; CRY1; HY4; OOP2
10 Phytochrome A (PhyA)  --  interacts with  --  PKS1
11 Phytochrome A (PhyA)  --  interacts with  --  FHL
12 Phytochrome A (PhyA)  --  interacts with  --  AT2G37680
13 Phytochrome A (PhyA)  --  interacts with  --  PIF3
14 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6
15 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12
16 Phytochrome A (PhyA)  --  interacts with  --  ATROPGEF11; PIRF1; ROPGEF11
17 Phytochrome A (PhyA)  --  is regulated by  --  CAMTA3; SR1
18 Phytochrome A (PhyA)  --  is a member of  --  phy family, coding gene
19 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  regulates the expression of   --  PRE1
20 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  regulates the expression of   --  YUUCA8
21 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  regulates the expression of   --  BES1
22 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  is regulated by  --  della family, transcription factor gene
23 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  ARF6
24 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  ATDET1; DET1; FUS2
25 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  FBI1; HFR1; REP1; RSF1
26 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  Phytochrome B (PhyB)
27 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  ELF3; PYK20
28 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  HLH2; PAR2
29 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  HLH1; PAR1
30 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  FCA
31 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  RGL2
32 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  RGA1
33 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  interacts with  --  APRR1; AtTOC1; PRR1; TOC1
34 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=1.06025) with  --  PSAE-2
35 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=0.972127) with  --  ATGPX1; GPX1
36 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=0.889819) with  --  COR413-TM1; COR413IM1; COR414-TM1
37 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=1.00437) with  --  PIFI
38 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=0.897162) with  --  AT3G18050
39 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=0.830596) with  --  CYP71B4
40 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=1.104) with  --  AT5G02160
41 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=0.816775) with  --  AILP1; ATAILP1
42 Phytochrome A (PhyA)  --  interacts with  --  PIF4  --  has similar expression pattern (mutual information value=1.05488) with  --  AT5G19940
43 Phytochrome A (PhyA)  --  interacts with  --  FIN219; JAR1  --  interacts with  --  HY5
44 Phytochrome A (PhyA)  --  interacts with  --  FIN219; JAR1  --  interacts with  --  FIP1
45 Phytochrome A (PhyA)  --  interacts with  --  FIN219; JAR1  --  interacts with  --  CKR1/EIN2
46 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  is regulated by  --  ATMYC2
47 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  AT-PHH1; ATCRY2; CRY2; FHA; PHH1
48 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  SPA4
49 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  SPA3
50 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  SPA2
51 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  CO; FG
52 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  ATMYB75; MYB75; PAP1; SIAA1
53 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  ATMYB90; MYB90; PAP2
54 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  DDB1B
55 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  interacts with  --  DDB1A
56 Phytochrome A (PhyA)  --  interacts with  --  SPA1  --  is a member of  --  COP1/SPA1 COMPLEX
57 Phytochrome A (PhyA)  --  interacts with  --  FHY1; FRY1; PAT3  --  interacts with  --  AtMYB18; MYB18
58 Phytochrome A (PhyA)  --  interacts with  --  FHY1; FRY1; PAT3  --  is the target gene of  --  ath-miR5012
59 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  BIN4; MID
60 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  AT4G39070
61 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  ATRANGAP2; ATSCAR1; SCAR1; WAVE1
62 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  PHYE
63 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  PHYD
64 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  PHYC
65 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  ATCOL3; COL3
66 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  HYH
67 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  BBX24; STO
68 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  GI
69 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  STH
70 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  CIP1
71 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  CIP8
72 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  AT1G61620
73 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  UVR8
74 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  HRT; RCY1; RPP8
75 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  CIP7
76 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  CIP4
77 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  CIN4; COP10; EMB144; FUS9
78 Phytochrome A (PhyA)  --  interacts with  --  COP1  --  interacts with  --  ATTCP-1; TCP-1
79 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  TED4
80 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  FeChII
81 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  AS1 family97, transcription factor gene
82 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  DAG1/PIL5
83 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  ATGA2OX2
84 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  ATGA3OX1 family94, coding gene
85 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  psy
86 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  ATFC-II; FC-II; FC2
87 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  som
88 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  regulates the expression of   --  PORC
89 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  interacts with  --  AT4G37710
90 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  interacts with  --  FHY3
91 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  interacts with  --  PIF7
92 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  interacts with  --  PIF6; PIL2
93 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  interacts with  --  ABI3
94 Phytochrome A (PhyA)  --  interacts with  --  pil5  --  is modified by  --  ATCKA2; CKA2
95 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  ATCLC-C; CLC-C
96 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  ATEXO70H1; EXO70H1
97 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  AT3G03000
98 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  AT5G13810
99 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  AT4G28830
100 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  NRPB6B; NRPE6B
101 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  AT3G28715
102 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  interacts with  --  ATPP7; PP7
103 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has similar expression pattern (mutual information value=0.972479) with  --  AT2G25830
104 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has similar expression pattern (mutual information value=0.843965) with  --  CPN60B; LEN1
105 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has similar expression pattern (mutual information value=0.907681) with  --  GLYR2; GR2
106 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has similar expression pattern (mutual information value=0.90106) with  --  CYP20-3; ROC4
107 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has similar expression pattern (mutual information value=0.844184) with  --  AT5G55220
108 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has similar expression pattern (mutual information value=0.927247) with  --  AT5G66470
109 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has similar expression pattern (mutual information value=0.909335) with  --  AT5G19370
110 Phytochrome A (PhyA)  --  interacts with  --  ATNDPK2; NDPK IA; NDPK IA IA; NDPK1A; NDPK2  --  has product (in catalytic reaction)  --  Nucleoside triphosphate
111 Phytochrome A (PhyA)  --  interacts with  --  ATCRY1; BLU1; CRY1; HY4; OOP2  --  interacts with  --  ADO1; FKL2; LKP1; ZTL
112 Phytochrome A (PhyA)  --  interacts with  --  ATCRY1; BLU1; CRY1; HY4; OOP2  --  has similar expression pattern (mutual information value=0.827273) with  --  G6PD1
113 Phytochrome A (PhyA)  --  interacts with  --  PKS1  --  interacts with  --  JK218; NPH3; RPT3
114 Phytochrome A (PhyA)  --  interacts with  --  PKS1  --  interacts with  --  JK224; NPH1; PHOT1; RPT1
115 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  ANS; LDOX; TDS4; TT18
116 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  DFR; M318; TT3
117 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  CYP75B1; D501; TT7
118 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  CHI
119 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  ATCHS; CHS; TT4
120 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  F3'H; F3H; TT6
121 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  AtCCA1; CCA1
122 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  RBCS1A
123 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  regulates the expression of   --  LHY; LHY1
124 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  interacts with  --  ATHDA15; HDA15
125 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  interacts with  --  RGL3
126 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  interacts with  --  RGL
127 Phytochrome A (PhyA)  --  interacts with  --  PIF3  --  interacts with  --  TCP2; TCP2
128 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  interacts with  --  ATP8; AtRCD1; CEO; CEO1; RCD1
129 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.911896) with  --  SCPL8; SNG1
130 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.985435) with  --  LHB1B1; LHCB1.4
131 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.985435) with  --  LHB1B2; LHCB1.5
132 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.859617) with  --  ATHPR1; HPR
133 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.896028) with  --  LHCB4.2
134 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.843007) with  --  CRR31
135 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=1.13047) with  --  AT3G47250
136 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.819232) with  --  XTH6
137 Phytochrome A (PhyA)  --  interacts with  --  PIF5; PIL6  --  has similar expression pattern (mutual information value=0.890674) with  --  ATCNGC2; CNGC2; DND1
138 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  interacts with  --  PTAC14
139 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=1.12058) with  --  ATRAP; RAP
140 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=1.1277) with  --  PDE324; PTAC3
141 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=1.0442) with  --  TRX P; TRX z
142 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=1.15518) with  --  EMB2083
143 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=0.97207) with  --  cpHsc70-1
144 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=0.968128) with  --  PDE312; PTAC10
145 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=1.13832) with  --  ATOBGC; ATOBGL; CPSAR1; EMB269; EMB3138
146 Phytochrome A (PhyA)  --  interacts with  --  HMR; PTAC12  --  has similar expression pattern (mutual information value=0.916849) with  --  ARC6
147 Phytochrome A (PhyA)  --  interacts with  --  ATROPGEF11; PIRF1; ROPGEF11  --  interacts with  --  ARAC9; ATROP8; ROP8
148 Phytochrome A (PhyA)  --  interacts with  --  ATROPGEF11; PIRF1; ROPGEF11  --  interacts with  --  ARAC3; ATROP6; RAC3; RHO1PS; ROP6
149 Phytochrome A (PhyA)  --  interacts with  --  ATROPGEF11; PIRF1; ROPGEF11  --  interacts with  --  ARAC4; ATRAC4; ATROP2; ROP2
150 Phytochrome A (PhyA)  --  is regulated by  --  CAMTA3; SR1  --  regulates the expression of   --  EIN3
151 Phytochrome A (PhyA)  --  is regulated by  --  CAMTA3; SR1  --  regulates the expression of   --  ACAM-2; CAM5
   Funding by the National Science Foundation    Funding by the Oklahoma Center for the Advancement of Science & Technology    Additional funding by the Samuel Roberts Noble Foundation

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