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Orthologous genes in OrthoFinder**

Species Gene Description
 ath-u.5   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-r.7   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-m.9   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-e.2   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-m.4.bio   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-m.4.hor   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-m.4.lig   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-m.4.str   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-m.4.tis   LCD1   reticulata-like protein, putative (DUF3411) 
 ath-u.5   RER1   reticulata-related 1 
 gma-u.5   100783806   protein RETICULATA, chloroplastic 
 gma-u.5   100780872   protein RETICULATA, chloroplastic 
 gma-u.5   100799853   protein RETICULATA-RELATED 1, chloroplastic 
 vvi-u.5   100854755   protein RETICULATA-RELATED 1, chloroplastic 
 vvi-u.5   100264910   protein RETICULATA, chloroplastic 
 ppo-u.5   7486529   protein RETICULATA, chloroplastic 
 ppo-u.5   7474926   protein RETICULATA-RELATED 1, chloroplastic 
 mtr-u.5   25498625   protein RETICULATA, chloroplastic 
 mtr-u.5   25487489   protein RETICULATA-RELATED 1, chloroplastic 
 sly-u.5   101244740   reticulata-related protein 
 sly-u.5   101252515   protein RETICULATA, chloroplastic 
 osa-u.5   4350400   uncharacterized LOC4350400 
 osa-u.5   4342806   protein RETICULATA-RELATED 1, chloroplastic 
 osa-u.5   4336440   protein RETICULATA-RELATED 1, chloroplastic 
 zma-u.5   100277077   Protein RETICULATA chloroplastic 
 zma-u.5   103648205   Protein RETICULATA chloroplastic 

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Top 50 coexpressed genes to LCD1 (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 LCD1 (ath-u.5 coexpression data)

CoexMap"818362"


athLCD1 | Entrez gene ID : 818362      
Species ath gma vvi ppo mtr sly osa zma bdi hvu bra cit bna sbi ghi sot nta cre tae
Paralog 10 3 2 2 2 2 3 2 0 0 0 0 0 0 0 0 0 0 0
Show/Hide Columns:        



CoexMap
Chloroplast
Nucleus

functional annotation
KEGG
GO BP
GO:0015822 [list] [network] ornithine transport  (3 genes)  IGI  
GO:0009648 [list] [network] photoperiodism  (91 genes)  IMP  
GO:0000302 [list] [network] response to reactive oxygen species  (142 genes)  IMP  
GO:0009658 [list] [network] chloroplast organization  (197 genes)  IMP  
GO:0048366 [list] [network] leaf development  (371 genes)  IMP  
GO CC
GO:0009706 [list] [network] chloroplast inner membrane  (66 genes)  IDA  
GO:0009941 [list] [network] chloroplast envelope  (585 genes)  HDA  
GO:0005783 [list] [network] endoplasmic reticulum  (897 genes)  HDA  
GO:0009507 [list] [network] chloroplast  (5014 genes)  HDA  
GO:0009536 [list] [network] plastid  (5443 genes)  HDA  
GO MF
GO:0000064 [list] [network] L-ornithine transmembrane transporter activity  (4 genes)  IGI  
Protein NP_001031506.1 [sequence] [blastp]
NP_001324059.1 [sequence] [blastp]
NP_850287.1 [sequence] [blastp]
NP_850288.2 [sequence] [blastp]
Subcellular
localization
wolf
chlo 7,  E.R. 1,  cyto 1,  cyto_nucl 1  (predict for NP_001031506.1)
chlo 7,  E.R. 1,  cyto 1,  cyto_nucl 1  (predict for NP_001324059.1)
chlo 8,  E.R. 1  (predict for NP_850287.1)
chlo 8,  E.R. 1  (predict for NP_850288.2)
Subcellular
localization
TargetP
chlo 5  (predict for NP_001031506.1)
chlo 5  (predict for NP_001324059.1)
chlo 5  (predict for NP_850287.1)
chlo 5  (predict for NP_850288.2)
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
LCD1
ath-r.7
for
LCD1
ath-m.9
for
LCD1
ath-e.2
for
LCD1
ath-m.4.bio
for
LCD1
ath-m.4.hor
for
LCD1
ath-m.4.lig
for
LCD1
ath-m.4.str
for
LCD1
ath-m.4.tis
for
LCD1
ath-u.5
for
RER1
gma-u.5
for
100783806
gma-u.5
for
100780872
gma-u.5
for
100799853
vvi-u.5
for
100854755
vvi-u.5
for
100264910
ppo-u.5
for
7486529
ppo-u.5
for
7474926
mtr-u.5
for
25498625
mtr-u.5
for
25487489
sly-u.5
for
101244740
sly-u.5
for
101252515
osa-u.5
for
4350400
osa-u.5
for
4342806
osa-u.5
for
4336440
zma-u.5
for
100277077
zma-u.5
for
103648205


Ortholog ID: 3088
Species ath ath bra bra bna bna ghi ghi cit cit gma gma vvi vvi ppo ppo mtr mtr sly sly sot sot nta nta osa osa zma zma tae tae hvu sbi bdi cre
Symbol RER1 LCD1 LOC103867158 LOC103857740 LOC106438182 LOC106371637 LOC107940906 LOC107889042 LOC102612997 LOC102616798 LOC100780872 LOC100799853 LOC100264910 LOC100854755 LOC7486529 LOC7474926 LOC25498625 LOC25487489 LOC101244740 LOC101252515 LOC102591402 LOC102588147 LOC107831559 LOC107762751 LOC4342806 LOC4336440 LOC100277077 LOC103648205 LOC123044909 LOC123188547 LOC123425992 LOC8069135 LOC100845721 CHLRE_02g141100v5
Function* reticulata-related 1 reticulata-like protein, putative (DUF3411) protein RETICULATA, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA-RELATED 1, chloroplastic-like protein RETICULATA, chloroplastic protein RETICULATA-RELATED 1, chloroplastic protein RETICULATA-RELATED 1, chloroplastic-like protein RETICULATA, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA-RELATED 1, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA-RELATED 1, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA-RELATED 1, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA-RELATED 1, chloroplastic reticulata-related protein protein RETICULATA, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA-RELATED 1, chloroplastic protein RETICULATA-RELATED 1, chloroplastic protein RETICULATA, chloroplastic-like protein RETICULATA-RELATED 1, chloroplastic protein RETICULATA-RELATED 1, chloroplastic Protein RETICULATA chloroplastic Protein RETICULATA chloroplastic protein RETICULATA, chloroplastic protein RETICULATA, chloroplastic protein RETICULATA, chloroplastic-like protein RETICULATA, chloroplastic protein RETICULATA, chloroplastic 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)
ath03008 Ribosome biogenesis in eukaryotes 3
ath03010 Ribosome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ath03010 Ribosome 6
ath01230 Biosynthesis of amino acids 5
ath00230 Purine metabolism 3
ath01240 Biosynthesis of cofactors 2
ath00300 Lysine biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bra03010 Ribosome 7
bra00250 Alanine, aspartate and glutamate metabolism 3
bra00230 Purine metabolism 2
bra00220 Arginine biosynthesis 2
bra01230 Biosynthesis of amino acids 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bra03010 Ribosome 7
bra03018 RNA degradation 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi01230 Biosynthesis of amino acids 3
ghi00970 Aminoacyl-tRNA biosynthesis 2
ghi00500 Starch and sucrose metabolism 2
ghi00520 Amino sugar and nucleotide sugar metabolism 2
ghi01250 Biosynthesis of nucleotide sugars 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi01200 Carbon metabolism 8
ghi00280 Valine, leucine and isoleucine degradation 4
ghi00410 beta-Alanine metabolism 4
ghi00640 Propanoate metabolism 4
ghi00061 Fatty acid biosynthesis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
cit00500 Starch and sucrose metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
gma03040 Spliceosome 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
gma04145 Phagosome 2
gma04517 IgSF CAM signaling 2
gma04814 Motor proteins 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
vvi00020 Citrate cycle (TCA cycle) 4
vvi01200 Carbon metabolism 4
vvi00010 Glycolysis / Gluconeogenesis 3
vvi00620 Pyruvate metabolism 3
vvi00785 Lipoic acid metabolism 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ppo03010 Ribosome 11
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ppo00280 Valine, leucine and isoleucine degradation 4
ppo01200 Carbon metabolism 3
ppo04146 Peroxisome 3
ppo00071 Fatty acid degradation 2
ppo00260 Glycine, serine and threonine metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
mtr03010 Ribosome 5
mtr01240 Biosynthesis of cofactors 2
mtr00010 Glycolysis / Gluconeogenesis 2
mtr01200 Carbon metabolism 2
mtr01230 Biosynthesis of amino acids 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
mtr03013 Nucleocytoplasmic transport 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sly03050 Proteasome 5
sly03040 Spliceosome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sly00260 Glycine, serine and threonine metabolism 2
sly00750 Vitamin B6 metabolism 2
sly01230 Biosynthesis of amino acids 2
sly00051 Fructose and mannose metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sot03050 Proteasome 6
sot00190 Oxidative phosphorylation 3
sot00300 Lysine biosynthesis 2
sot00470 D-Amino acid metabolism 2
sot01230 Biosynthesis of amino acids 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sot01230 Biosynthesis of amino acids 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta01240 Biosynthesis of cofactors 3
nta00760 Nicotinate and nicotinamide metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta03010 Ribosome 5
nta00230 Purine metabolism 2
nta01232 Nucleotide metabolism 2
nta00030 Pentose phosphate pathway 2
nta00480 Glutathione metabolism 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
osa01230 Biosynthesis of amino acids 4
osa03013 Nucleocytoplasmic transport 3
osa00220 Arginine biosynthesis 3
osa01210 2-Oxocarboxylic acid metabolism 3
osa03008 Ribosome biogenesis in eukaryotes 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
osa03010 Ribosome 4
osa03008 Ribosome biogenesis in eukaryotes 4
osa03013 Nucleocytoplasmic transport 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
zma03008 Ribosome biogenesis in eukaryotes 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae00270 Cysteine and methionine metabolism 3
tae00470 D-Amino acid metabolism 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
hvu00190 Oxidative phosphorylation 3
hvu03050 Proteasome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sbi03010 Ribosome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bdi03008 Ribosome biogenesis in eukaryotes 2
bdi03013 Nucleocytoplasmic transport 2
bdi03250 Viral life cycle - HIV-1 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
cre00010 Glycolysis / Gluconeogenesis 4
cre01200 Carbon metabolism 4
cre00620 Pyruvate metabolism 3
cre00020 Citrate cycle (TCA cycle) 2
cre00785 Lipoic acid 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 Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern
Entrez Gene ID* 832342 818362 103867158 103857740 106438182 106371637 107940906 107889042 102612997 102616798 100780872 100799853 100264910 100854755 7486529 7474926 25498625 25487489 101244740 101252515 102591402 102588147 107831559 107762751 4342806 4336440 100277077 103648205 123044909 123188547 123425992 8069135 100845721 5720426
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