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Orthologous genes in OrthoFinder**

Species Gene Description
 ath-u.5   PDS3   phytoene desaturase 3 
 ath-r.7   PDS3   phytoene desaturase 3 
 ath-m.9   PDS3   phytoene desaturase 3 
 ath-e.2   PDS3   phytoene desaturase 3 
 ath-m.4.bio   PDS3   phytoene desaturase 3 
 ath-m.4.hor   PDS3   phytoene desaturase 3 
 ath-m.4.lig   PDS3   phytoene desaturase 3 
 ath-m.4.str   PDS3   phytoene desaturase 3 
 ath-m.4.tis   PDS3   phytoene desaturase 3 
 bra-r.6   PDS   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 bra-r.6   103835193   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 bna-r.1   106390766   15-cis-phytoene desaturase, chloroplastic/chromoplastic-like 
 bna-r.1   106361559   15-cis-phytoene desaturase, chloroplastic/chromoplastic-like 
 bna-r.1   106439724   15-cis-phytoene desaturase, chloroplastic/chromoplastic-like 
 ghi-r.1   107914777   15-cis-phytoene desaturase, chloroplastic/chromoplastic-like 
 ghi-r.1   107902032   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 cit-r.1   102577966   phytoene desaturase 
 gma-u.5   PDS1   phytoene desaturase 
 gma-u.5   100127420   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 vvi-u.5   PDS1   phytoene desaturase 
 ppo-u.5   7462030   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 mtr-u.5   11432737   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 sly-u.5   pds   phytoene desaturase 
 sot-r.1   102577582   phytoene dehydrogenase, chloroplastic/chromoplastic 
 nta-r.1   107788963   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 nta-r.1   107816873   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 osa-u.5   4331854   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 zma-u.5   542329   phytoene desaturase 
 tae-r.2   100037655   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 tae-r.2   123098691   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 tae-r.2   123084692   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 hvu-r.1   123449634   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 sbi-r.1   110436156   phytoene dehydrogenase, chloroplastic/chromoplastic 
 bdi-r.1   PDS   phytoene dehydrogenase, chloroplastic/chromoplastic 
 cre-r.1   CHLRE_12g509650v5   uncharacterized protein 

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Top 50 coexpressed genes to PDS3 (ath-u.5 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 PDS3 (ath-u.5 coexpression data)

CoexMap"827061"


athPDS3 | Entrez gene ID : 827061      
Species ath bra bna ghi cit gma vvi ppo mtr sly sot nta osa zma tae hvu sbi bdi cre
Paralog 9 2 3 2 1 2 1 1 1 1 1 2 1 1 3 1 1 1 1
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CoexMap
Chloroplast
Nucleus

functional annotation
KEGG ath00906 [list] [network] Carotenoid biosynthesis (32 genes)
GO BP
GO:0016120 [list] [network] carotene biosynthetic process  (7 genes)  IDA  
GO:0016117 [list] [network] carotenoid biosynthetic process  (21 genes)  IDA  
GO CC
GO:0009509 [list] [network] chromoplast  (3 genes)  ISS  
GO:0009534 [list] [network] chloroplast thylakoid  (417 genes)  HDA  
GO:0009941 [list] [network] chloroplast envelope  (585 genes)  HDA  
GO:0005829 [list] [network] cytosol  (2593 genes)  HDA  
GO:0009507 [list] [network] chloroplast  (5014 genes)  HDA ISM TAS  
GO MF
GO:0016166 [list] [network] phytoene dehydrogenase activity  (1 genes)  IDA  
Protein NP_001319934.1 [sequence] [blastp]
NP_001329033.1 [sequence] [blastp]
NP_193157.1 [sequence] [blastp]
Subcellular
localization
wolf
chlo 7,  cyto 3  (predict for NP_001319934.1)
chlo 7,  cyto 3  (predict for NP_001329033.1)
chlo 7,  cyto 3  (predict for NP_193157.1)
Subcellular
localization
TargetP
chlo 3  (predict for NP_001319934.1)
chlo 3  (predict for NP_001329033.1)
chlo 3  (predict for NP_193157.1)
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-u.5
for
PDS3
ath-r.7
for
PDS3
ath-m.9
for
PDS3
ath-e.2
for
PDS3
ath-m.4.bio
for
PDS3
ath-m.4.hor
for
PDS3
ath-m.4.lig
for
PDS3
ath-m.4.str
for
PDS3
ath-m.4.tis
for
PDS3
bra-r.6
for
PDS
bra-r.6
for
103835193
bna-r.1
for
106390766
bna-r.1
for
106361559
bna-r.1
for
106439724
ghi-r.1
for
107914777
ghi-r.1
for
107902032
cit-r.1
for
102577966
gma-u.5
for
PDS1
gma-u.5
for
100127420
vvi-u.5
for
PDS1
ppo-u.5
for
7462030
mtr-u.5
for
11432737
sly-u.5
for
pds
sot-r.1
for
102577582
nta-r.1
for
107788963
nta-r.1
for
107816873
osa-u.5
for
4331854
zma-u.5
for
542329
tae-r.2
for
100037655
tae-r.2
for
123098691
tae-r.2
for
123084692
hvu-r.1
for
123449634
sbi-r.1
for
110436156
bdi-r.1
for
PDS
cre-r.1
for
CHLRE_12g509650v5


Ortholog ID: 8080
Species ath bra bra bna bna bna ghi ghi cit gma gma vvi ppo mtr sly sot nta nta osa zma tae tae tae hvu sbi bdi cre
Symbol PDS3 PDS LOC103835193 LOC106361559 LOC106439724 LOC106445763 LOC107914777 LOC107902032 LOC102577966 PDS1 LOC100127420 PDS1 LOC7462030 LOC11432737 pds LOC102577582 LOC107788963 LOC107816873 LOC4331854 LOC542329 LOC100037655 LOC123098691 LOC123084692 LOC123449634 LOC110436156 PDS CHLRE_12g509650v5
Function* phytoene desaturase 3 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic-like 15-cis-phytoene desaturase, chloroplastic/chromoplastic-like 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic-like 15-cis-phytoene desaturase, chloroplastic/chromoplastic phytoene desaturase phytoene desaturase 15-cis-phytoene desaturase, chloroplastic/chromoplastic phytoene desaturase 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic phytoene desaturase phytoene dehydrogenase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic phytoene desaturase 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic phytoene dehydrogenase, chloroplastic/chromoplastic phytoene dehydrogenase, chloroplastic/chromoplastic uncharacterized protein
Coexmap

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Coexpression

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KEGG Info
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ath00906 Carotenoid biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bra00196 Photosynthesis - antenna proteins 3
bra01200 Carbon metabolism 3
bra01240 Biosynthesis of cofactors 2
bra00195 Photosynthesis 2
bra00230 Purine metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna00906 Carotenoid biosynthesis 5
bna00970 Aminoacyl-tRNA biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna00906 Carotenoid biosynthesis 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna00906 Carotenoid biosynthesis 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi00900 Terpenoid backbone biosynthesis 4
ghi00906 Carotenoid biosynthesis 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi00900 Terpenoid backbone biosynthesis 4
ghi00906 Carotenoid biosynthesis 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
cit00906 Carotenoid biosynthesis 2
cit03010 Ribosome 2
cit00970 Aminoacyl-tRNA biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
gma00906 Carotenoid biosynthesis 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
gma00906 Carotenoid biosynthesis 4
gma00480 Glutathione metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
vvi00970 Aminoacyl-tRNA biosynthesis 2
vvi00500 Starch and sucrose metabolism 2
vvi03060 Protein export 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ppo00061 Fatty acid biosynthesis 2
ppo00071 Fatty acid degradation 2
ppo01212 Fatty acid metabolism 2
ppo04146 Peroxisome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
mtr00900 Terpenoid backbone biosynthesis 6
mtr00906 Carotenoid biosynthesis 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sly00906 Carotenoid biosynthesis 3
sly00051 Fructose and mannose metabolism 3
sly00900 Terpenoid backbone biosynthesis 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta00906 Carotenoid biosynthesis 8
nta01200 Carbon metabolism 5
nta00710 Carbon fixation by Calvin cycle 3
nta00860 Porphyrin metabolism 3
nta00270 Cysteine and methionine metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta00906 Carotenoid biosynthesis 8
nta00860 Porphyrin metabolism 3
nta00270 Cysteine and methionine metabolism 2
nta00920 Sulfur metabolism 2
nta01200 Carbon metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
osa00906 Carotenoid biosynthesis 3
osa00053 Ascorbate and aldarate metabolism 2
osa00480 Glutathione metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae00906 Carotenoid biosynthesis 6
tae00860 Porphyrin metabolism 2
tae01240 Biosynthesis of cofactors 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae00906 Carotenoid biosynthesis 6
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae00906 Carotenoid biosynthesis 6
tae00860 Porphyrin metabolism 2
tae01240 Biosynthesis of cofactors 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
hvu00760 Nicotinate and nicotinamide metabolism 2
hvu00906 Carotenoid biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sbi00564 Glycerophospholipid metabolism 2
sbi04070 Phosphatidylinositol signaling system 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
cre00906 Carotenoid biosynthesis 5
cre00860 Porphyrin metabolism 2
cre00900 Terpenoid backbone biosynthesis 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 Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern
Entrez Gene ID* 827061 103863556 103835193 106361559 106439724 106445763 107914777 107902032 102577966 547970 100127420 100240685 7462030 11432737 544073 102577582 107788963 107816873 4331854 542329 100037655 123098691 123084692 123449634 110436156 100830664 5716547
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