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Orthologous genes in OrthoFinder**

Species Gene Description
 sly-u.5   pds   phytoene desaturase 
 sly-r.6   pds   phytoene desaturase 
 sly-m.5   pds   phytoene desaturase 
 ath-u.5   PDS3   phytoene desaturase 3 
 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 
 osa-u.5   4331854   15-cis-phytoene desaturase, chloroplastic/chromoplastic 
 zma-u.5   542329   phytoene desaturase 

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Top 50 coexpressed genes to pds (sly-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 pds (sly-u.5 coexpression data)

CoexMap"544073"


slypds | Entrez gene ID : 544073      
Species sly ath gma vvi ppo mtr osa zma cre ghi cit hvu bdi sot bra sbi tae nta bna
Paralog 3 1 2 1 1 1 1 1 0 0 0 0 0 0 0 0 0 0 0
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CoexMap
Chloroplast
Nucleus

functional annotation
KEGG sly00906 [list] [network] Carotenoid biosynthesis (39 genes)
GO BP
GO:0016117 [list] [network] carotenoid biosynthetic process  (16 genes)  IEA  
GO CC
GO:0009534 [list] [network] chloroplast thylakoid  (145 genes)  IEA  
GO MF
GO:0016166 [list] [network] phytoene dehydrogenase activity  (1 genes)  IEA  
Protein NP_001234095.1 [sequence] [blastp]
XP_010318412.1 [sequence] [blastp]
XP_010318414.1 [sequence] [blastp]
XP_019068139.2 [sequence] [blastp]
XP_069150944.1 [sequence] [blastp]
XP_069150945.1 [sequence] [blastp]
XP_069150946.1 [sequence] [blastp]
Subcellular
localization
wolf
chlo 9  (predict for NP_001234095.1)
plas 6,  vacu 1,  E.R. 1,  E.R._vacu 1  (predict for XP_010318412.1)
chlo 9  (predict for XP_010318414.1)
chlo 10  (predict for XP_019068139.2)
chlo 9  (predict for XP_069150944.1)
chlo 9  (predict for XP_069150945.1)
chlo 9  (predict for XP_069150946.1)
Subcellular
localization
TargetP
chlo 6,  mito 3  (predict for NP_001234095.1)
other 9,  mito 3  (predict for XP_010318412.1)
chlo 6,  mito 3  (predict for XP_010318414.1)
scret 4  (predict for XP_019068139.2)
chlo 6,  mito 3  (predict for XP_069150944.1)
chlo 6,  mito 3  (predict for XP_069150945.1)
chlo 6,  mito 3  (predict for XP_069150946.1)
Gene expression
All samples [Expression pattern]
Tissue specificity*
Show Coexpressed Genes
Gene Function KEGG Entrez
Gene
ID		 Other ID Link Target Reference

sly-u.5
for
pds

.
sly-r.6
for
pds

.
sly-m.5
for
pds

.
ath-u.5
for
PDS3

.
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

.
osa-u.5
for
4331854

.
zma-u.5
for
542329

.


Ortholog ID: 8080
Species ath gma gma sly osa zma bra bra vvi ppo mtr tae tae hvu ghi ghi bna bna cre sbi sot cit bdi nta nta
Symbol PDS3 PDS1 LOC100127420 pds LOC4331854 LOC542329 PDS LOC103835193 PDS1 LOC7462030 LOC11432737 LOC100037655 LOC123098691 LOC123449634 LOC107914777 LOC107902032 LOC106439724 LOC106445763 CHLRE_12g509650v5 LOC110436156 LOC102577582 LOC102577966 PDS LOC107788963 LOC107816873
Function* phytoene desaturase 3 phytoene desaturase 15-cis-phytoene desaturase, chloroplastic/chromoplastic phytoene desaturase 15-cis-phytoene desaturase, chloroplastic/chromoplastic phytoene desaturase 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 15-cis-phytoene desaturase, chloroplastic/chromoplastic 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 uncharacterized protein phytoene dehydrogenase, chloroplastic/chromoplastic phytoene dehydrogenase, chloroplastic/chromoplastic phytoene desaturase phytoene dehydrogenase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic 15-cis-phytoene desaturase, chloroplastic/chromoplastic
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)
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)
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)
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)
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)
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)
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)
hvu00760 Nicotinate and nicotinamide metabolism 2
hvu00906 Carotenoid biosynthesis 2
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)
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)
cre00906 Carotenoid biosynthesis 5
cre00860 Porphyrin metabolism 2
cre00900 Terpenoid backbone 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)
cit00906 Carotenoid biosynthesis 2
cit03010 Ribosome 2
cit00970 Aminoacyl-tRNA biosynthesis 2
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
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
Entrez Gene ID* 827061 547970 100127420 544073 4331854 542329 103863556 103835193 100240685 7462030 11432737 100037655 123098691 123449634 107914777 107902032 106439724 106445763 5716547 110436156 102577582 102577966 100830664 107788963 107816873
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