ATTED-II : GeneCoexpression result

Select Species^**

Orthologous genes in OrthoFinder^**

Species	Gene	Description
bra-r.6	103843346	phytochrome A
bra-r.6	103868296	phytochrome C
bra-r.6	103871728	phytochrome A
bna-r.1	106417700	phytochrome A
bna-r.1	111212637	phytochrome C
bna-r.1	106400740	phytochrome A
ath-u.5	PHYC	phytochrome C
ath-u.5	PHYA	phytochrome A
ghi-r.1	107912456	phytochrome C
ghi-r.1	107923974	phytochrome C-like
ghi-r.1	121209328	phytochrome A
cit-r.1	102618478	phytochrome C
cit-r.1	102616503	phytochrome A-2
gma-u.5	PHYA	phytochrome A
gma-u.5	PHYA3	phytochrome A-2-like
gma-u.5	E4	phytochrome A
vvi-u.5	100258014	phytochrome C
vvi-u.5	PHYA	phytochrome A
ppo-u.5	7482219	phytochrome A
mtr-u.5	11405950	phytochrome A
sly-u.5	phyA	Phytochrome A
sly-u.5	PHYF	phytochrome F
sot-r.1	102595581	phytochrome C
sot-r.1	C-PHYA	type A phytochrome
nta-r.1	107827766	phytochrome A1-like
nta-r.1	107812152	phytochrome A1
nta-r.1	107807432	phytochrome C
osa-u.5	4334135	phytochrome C-like
osa-u.5	4333930	phytochrome A-like
zma-u.5	115101004	uncharacterized LOC115101004
zma-u.5	103644014	phytochrome C
zma-u.5	100192976	phytochromeC2
tae-r.2	123122860	phytochrome C
tae-r.2	100873141	phytochrome A type 3
tae-r.2	100873142	phytochrome A type 3
hvu-r.1	123452263	phytochrome C
hvu-r.1	123447547	phytochrome A type 3
sbi-r.1	8086232	phytochrome C
sbi-r.1	8059991	phytochrome a
bdi-r.1	100836209	phytochrome A type 3
bdi-r.1	100834357	phytochrome C

Top 50 coexpressed genes to 103843346 (bra-r.6 coexpression data)

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

Top 50 enrichment test to 103843346 (bra-r.6 coexpression data)

CoexMap"103843346"

[Cytoscape]

Annotation

functional annotation

KEGG

brp04712 [list] [network] Circadian rhythm - plant (74 genes)

GO BP

GO:0009584 [list] [network] detection of visible light	(5 genes)	IEA
GO:0009585 [list] [network] red, far-red light phototransduction	(5 genes)	IEA
GO:0017006 [list] [network] protein-tetrapyrrole linkage	(8 genes)	IEA
GO:0006355 [list] [network] regulation of DNA-templated transcription	(2595 genes)	IEA

GO CC

GO MF

GO:0009881 [list] [network] photoreceptor activity	(8 genes)	IEA
GO:0042803 [list] [network] protein homodimerization activity	(17 genes)	IEA
GO:0000155 [list] [network] phosphorelay sensor kinase activity	(19 genes)	IEA

Protein

XP_009118309.2 [sequence] [blastp]
XP_009118310.2 [sequence] [blastp]
XP_009118311.2 [sequence] [blastp]
XP_033136238.1 [sequence] [blastp]
XP_033136239.1 [sequence] [blastp]
XP_033136240.1 [sequence] [blastp]
XP_033136241.1 [sequence] [blastp]
XP_033136242.1 [sequence] [blastp]

Subcellular
localization
wolf

chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_009118309.2)
chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_009118310.2)
chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_009118311.2)
chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_033136238.1)
chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_033136239.1)
chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_033136240.1)
chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_033136241.1)
chlo 4, mito 3, nucl 2, cyto_mito 2	(predict for XP_033136242.1)

Subcellular
localization
TargetP

chlo 6, mito 4	(predict for XP_009118309.2)
chlo 6, mito 4	(predict for XP_009118310.2)
chlo 6, mito 4	(predict for XP_009118311.2)
chlo 6, mito 4	(predict for XP_033136238.1)
chlo 6, mito 4	(predict for XP_033136239.1)
chlo 6, mito 4	(predict for XP_033136240.1)
chlo 6, mito 4	(predict for XP_033136241.1)
chlo 6, mito 4	(predict for XP_033136242.1)

Gene expression

All samples

[Expression pattern]

Tissue specificity^*

Coexpression

	Gene	Function	KEGG					Entrez Gene ID	Other ID	Link	Target	Reference
	Gene	Function	KEGG					Entrez Gene ID	Other ID	Link	bra-r.6 for 103843346	bra-r.6 for 103868296	bra-r.6 for 103871728	bna-r.1 for 106417700	bna-r.1 for 111212637	bna-r.1 for 106400740	ath-u.5 for PHYC	ath-u.5 for PHYA	ghi-r.1 for 107912456	ghi-r.1 for 107923974	ghi-r.1 for 121209328	cit-r.1 for 102618478	cit-r.1 for 102616503	gma-u.5 for PHYA	gma-u.5 for PHYA3	gma-u.5 for E4	vvi-u.5 for 100258014	vvi-u.5 for PHYA	ppo-u.5 for 7482219	mtr-u.5 for 11405950	sly-u.5 for phyA	sly-u.5 for PHYF	sot-r.1 for 102595581	sot-r.1 for C-PHYA	nta-r.1 for 107827766	nta-r.1 for 107812152	nta-r.1 for 107807432	osa-u.5 for 4334135	osa-u.5 for 4333930	zma-u.5 for 115101004	zma-u.5 for 103644014	zma-u.5 for 100192976	tae-r.2 for 123122860	tae-r.2 for 100873141	tae-r.2 for 100873142	hvu-r.1 for 123452263	hvu-r.1 for 123447547	sbi-r.1 for 8086232	sbi-r.1 for 8059991	bdi-r.1 for 100836209	bdi-r.1 for 100834357

Ortholog

Ortholog ID: 3383

Species

bra

bna

ath

ghi

cit

gma

vvi

ppo

mtr

sly

sot

nta

osa

zma

tae

hvu

sbi

bdi

Symbol

PHYC

PHYA

PHYA

PHYA3

LOC100258014

PHYA

LOC7482219

LOC11405950

phyA

PHYF

C-PHYA

Function^*

phytochrome A

phytochrome C

phytochrome A

phytochrome C

phytochrome A

phytochrome C

phytochrome A

phytochrome C

phytochrome C-like

phytochrome A

phytochrome C

phytochrome A-2

phytochrome A

phytochrome A-2-like

phytochrome A

phytochrome C

phytochrome A

Phytochrome A

phytochrome F

phytochrome C

type A phytochrome

phytochrome A1-like

phytochrome A1

phytochrome C

phytochrome C-like

phytochrome A-like

uncharacterized LOC115101004

phytochrome C

phytochrome A-like

phytochrome C

phytochrome A type 3

phytochrome C

phytochrome a

phytochrome A type 3

phytochrome C

Coexmap

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Coexpression

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KEGG Info

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
bra04712	Circadian rhythm - plant	2
bra02010	ABC transporters	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
bra00500	Starch and sucrose metabolism	7

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
bra04712	Circadian rhythm - plant	2
bra00280	Valine, leucine and isoleucine degradation	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
bna04712	Circadian rhythm - plant	4

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
bna03040	Spliceosome	4
bna00750	Vitamin B6 metabolism	2
bna04712	Circadian rhythm - plant	2
bna04142	Lysosome	2
bna00760	Nicotinate and nicotinamide metabolism	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
bna04712	Circadian rhythm - plant	4

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
ghi04075	Plant hormone signal transduction	6

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
ghi04075	Plant hormone signal transduction	6

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
ghi04712	Circadian rhythm - plant	8

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
cit04120	Ubiquitin mediated proteolysis	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
cit03040	Spliceosome	4

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
gma04712	Circadian rhythm - plant	4

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
gma03082	ATP-dependent chromatin remodeling	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
gma04712	Circadian rhythm - plant	4

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
vvi04120	Ubiquitin mediated proteolysis	3

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
mtr04712	Circadian rhythm - plant	5

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
sly04120	Ubiquitin mediated proteolysis	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
sot04120	Ubiquitin mediated proteolysis	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
sot03040	Spliceosome	3
sot04712	Circadian rhythm - plant	2
sot04146	Peroxisome	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
nta00520	Amino sugar and nucleotide sugar metabolism	2
nta04148	Efferocytosis	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
nta04075	Plant hormone signal transduction	3

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
nta04712	Circadian rhythm - plant	4

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
osa03040	Spliceosome	3
osa03082	ATP-dependent chromatin remodeling	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
osa04075	Plant hormone signal transduction	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
zma04712	Circadian rhythm - plant	2
zma04146	Peroxisome	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
zma03018	RNA degradation	3
zma00280	Valine, leucine and isoleucine degradation	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
zma04712	Circadian rhythm - plant	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
tae00040	Pentose and glucuronate interconversions	5

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
tae00040	Pentose and glucuronate interconversions	2

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
tae00040	Pentose and glucuronate interconversions	3
tae00310	Lysine degradation	3

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
hvu00052	Galactose metabolism	3

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
sbi00460	Cyanoamino acid metabolism	4
sbi00500	Starch and sucrose metabolism	4
sbi00999	Biosynthesis of various plant secondary metabolites	4

KEGG^* ID	Title	#genes	Link to the KEGG^* map (Multiple genes)
bdi04120	Ubiquitin mediated proteolysis	2
bdi00020	Citrate cycle (TCA cycle)	2
bdi00785	Lipoic acid metabolism	2
bdi01200	Carbon metabolism	2
bdi01210	2-Oxocarboxylic acid metabolism	2

Expression

Expression pattern

Entrez Gene ID^*

103843346

103868296

103871728

106417700

111212637

106346267

833570

837483

107912456

107923974

107893266

102618478

102616503

547810

100791098

100790763

100258014

100240824

7482219

11405950

544176

101259349

102595581

102577627

107827766

107812152

107773723

4334135

4333930

115101004

103644014

103643916

123122860

123113346

123105051

123452263

123447547

8086232

8059991

100836209

100834357

The preparation time of this page was 0.2 [sec].


Species	bra	bna	ath	ghi	cit	gma	vvi	ppo	mtr	sly	sot	nta	osa	zma	tae	hvu	sbi	bdi	cre
Paralog	3	3	2	3	2	3	2	1	1	2	2	3	2	3	3	2	2	2	0

Select Species**

Orthologous genes in OrthoFinder**

Top 50 coexpressed genes to 103843346 (bra-r.6 coexpression data)

Top 50 enrichment test to 103843346 (bra-r.6 coexpression data)

Select Species^**

Orthologous genes in OrthoFinder^**