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Orthologous genes in OrthoFinder**

Species Gene Description
 ath-m.4.bio   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-u.5   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-r.7   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-m.9   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-e.2   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-m.4.hor   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-m.4.lig   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-m.4.str   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 ath-m.4.tis   HY2   phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) 
 bra-r.6   103859309   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 bna-r.1   106439211   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 bna-r.1   106352983   phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like 
 bna-r.1   125587929   phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like 
 ghi-r.1   107945135   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 ghi-r.1   107939449   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 cit-r.1   102609362   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 gma-u.5   100791053   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 vvi-u.5   100267105   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 ppo-u.5   7478520   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 mtr-u.5   11434871   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 sly-u.5   AUREA   phytochromobilin synthase 
 sot-r.1   102604691   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 nta-r.1   107761635   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 nta-r.1   107823317   phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like 
 osa-u.5   4325761   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 zma-u.5   542164   elongated mesocotyl 1 
 tae-r.2   123066605   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 hvu-r.1   123445491   phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like 
 sbi-r.1   8081332   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 
 bdi-r.1   100829998   phytochromobilin:ferredoxin oxidoreductase, chloroplastic 

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Top 50 coexpressed genes to HY2 (ath-m.4.bio coexpression data)

 KEGG ID   Pathway name   #genes in coex list   #genes in genome   -log10(p)   Link to the KEGG* map 
(Multiple genes)

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Top 50 enrichment test to HY2 (ath-m.4.bio coexpression data)

CoexMap"820069"


athHY2 | Entrez gene ID : 820069      
Species ath bra bna ghi cit gma vvi ppo mtr sly sot nta osa zma tae hvu sbi bdi cre
Paralog 9 1 3 2 1 1 1 1 1 1 1 2 1 1 1 1 1 1 0
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CoexMap
Chloroplast
Nucleus

functional annotation
KEGG ath00860 [list] [network] Porphyrin metabolism (57 genes)
GO BP
GO:0010024 [list] [network] phytochromobilin biosynthetic process  (3 genes)  IEA NAS  
GO:0010019 [list] [network] chloroplast-nucleus signaling pathway  (9 genes)  IMP  
GO CC
GO:0009507 [list] [network] chloroplast  (5014 genes)  IDA ISM  
GO MF
GO:0050619 [list] [network] phytochromobilin:ferredoxin oxidoreductase activity  (1 genes)  IDA  
GO:0016636 [list] [network] oxidoreductase activity, acting on the CH-CH group of donors, iron-sulfur protein as acceptor  (2 genes)  IEA  
GO:0050897 [list] [network] cobalt ion binding  (44 genes)  IEA  
Protein NP_001326171.1 [sequence] [blastp]
NP_566344.2 [sequence] [blastp]
NP_850996.1 [sequence] [blastp]
NP_974264.1 [sequence] [blastp]
Subcellular
localization
wolf
chlo 9  (predict for NP_001326171.1)
chlo 9,  nucl 1,  mito 1  (predict for NP_566344.2)
chlo 9,  nucl 1,  mito 1  (predict for NP_850996.1)
cyto 5,  cyto_E.R. 3,  nucl 1,  extr 1,  mito 1,  cysk 1,  nucl_plas 1  (predict for NP_974264.1)
Subcellular
localization
TargetP
chlo 9  (predict for NP_001326171.1)
chlo 9  (predict for NP_566344.2)
chlo 8  (predict for NP_850996.1)
other 5,  mito 3  (predict for NP_974264.1)
Gene expression
All samples [Expression pattern]
Tissue specificity*
Show Coexpressed Genes
Gene Function KEGG Entrez
Gene
ID		 Other ID Link Target Condition-specific* Reference

ath-m.4.bio
for
HY2
ath-u.5
for
HY2
ath-r.7
for
HY2
ath-m.9
for
HY2
ath-e.2
for
HY2
ath-m.4.hor
for
HY2
ath-m.4.lig
for
HY2
ath-m.4.str
for
HY2
ath-m.4.tis
for
HY2
bra-r.6
for
103859309
bna-r.1
for
106439211
bna-r.1
for
106352983
bna-r.1
for
125587929
ghi-r.1
for
107945135
ghi-r.1
for
107939449
cit-r.1
for
102609362
gma-u.5
for
100791053
vvi-u.5
for
100267105
ppo-u.5
for
7478520
mtr-u.5
for
11434871
sly-u.5
for
AUREA
sot-r.1
for
102604691
nta-r.1
for
107761635
nta-r.1
for
107823317
osa-u.5
for
4325761
zma-u.5
for
542164
tae-r.2
for
123066605
hvu-r.1
for
123445491
sbi-r.1
for
8081332
bdi-r.1
for
100829998


Ortholog ID: 9461
Species ath bra bna bna bna ghi ghi cit gma vvi ppo mtr sly sot nta nta osa zma tae hvu sbi bdi
Symbol HY2 LOC103859309 LOC106439211 LOC106352983 LOC125587929 LOC107945135 LOC107939449 LOC102609362 LOC100791053 LOC100267105 LOC7478520 LOC11434871 AUREA LOC102604691 LOC107761635 LOC107823317 LOC4325761 LOC542164 LOC123066605 LOC123445491 LOC8081332 LOC100829998
Function* phytochromobilin:ferredoxin oxidoreductase, chloroplast / phytochromobilin synthase (HY2) phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin synthase phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like phytochromobilin:ferredoxin oxidoreductase, chloroplastic elongated mesocotyl 1 phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic-like phytochromobilin:ferredoxin oxidoreductase, chloroplastic phytochromobilin:ferredoxin oxidoreductase, chloroplastic
Coexmap

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Coexpression

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KEGG Info
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bra01230 Biosynthesis of amino acids 3
bra00340 Histidine metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna00230 Purine metabolism 5
bna00860 Porphyrin metabolism 5
bna03022 Basal transcription factors 4
bna03015 mRNA surveillance pathway 3
bna01240 Biosynthesis of cofactors 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna03022 Basal transcription factors 4
bna03015 mRNA surveillance pathway 4
bna00860 Porphyrin metabolism 3
bna03013 Nucleocytoplasmic transport 2
bna03040 Spliceosome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna03022 Basal transcription factors 4
bna03015 mRNA surveillance pathway 3
bna00860 Porphyrin metabolism 3
bna00230 Purine metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi00500 Starch and sucrose metabolism 7
ghi00520 Amino sugar and nucleotide sugar metabolism 4
ghi01250 Biosynthesis of nucleotide sugars 4
ghi00860 Porphyrin metabolism 2
ghi00300 Lysine biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi03010 Ribosome 4
ghi00860 Porphyrin metabolism 2
ghi00310 Lysine degradation 2
ghi00500 Starch and sucrose metabolism 2
ghi00520 Amino sugar and nucleotide sugar metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ppo00970 Aminoacyl-tRNA biosynthesis 4
ppo00860 Porphyrin metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
mtr03060 Protein export 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta00270 Cysteine and methionine metabolism 2
nta00330 Arginine and proline metabolism 2
nta00860 Porphyrin metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta00270 Cysteine and methionine metabolism 2
nta00330 Arginine and proline metabolism 2
nta00860 Porphyrin metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
osa00520 Amino sugar and nucleotide sugar metabolism 2
osa00970 Aminoacyl-tRNA biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
zma04144 Endocytosis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
hvu00500 Starch and sucrose metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sbi00785 Lipoic acid metabolism 2
sbi01200 Carbon metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bdi00860 Porphyrin metabolism 2
Expression Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern
Entrez Gene ID* 820069 103859309 106439211 106352983 125587929 107945135 107939449 102609362 100791053 100267105 7478520 11434871 778324 102604691 107761635 107823317 4325761 542164 123066605 123445491 8081332 100829998
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