RnR: Regulatory-network Research using Arabidopsis T87 cultured cells

The prediction of regulatory relationships associated with At1g78950

Query At1g78950

Description beta-amyrin synthase, putative

RAFL ID pda11623

C.R. D

R.O.X.L. 18/18 lines

P.O.X. 92.3

Jump to MassBase to obtain the original metabolomics dataset of this over-expression experiment.

Click here to show genes regulating the gene of interest.

Click here to extract genes up-regulated and also co-expressed.

Maroon over-expressed gene

Orange gene

Yellow metabolite, lipid mode, GC-MS

Cyan metabolite, polar mode, GC-MS

Blue metabolite, LC-MS

Green metabolite, negative mode, CE-MS

Limegreen metabolite, positive mode, CE-MS

Candidate elements regulated by At1g78950

Genes

Regulated gene Std.R. P.R. Co-X Gene name/alias

At1g54890 101.7 100.0 0.189 late embryogenesis abundant protein-related / LEA protein-related

At3g47380 99.2 100.0 0.202 invertase/pectin methylesterase inhibitor family protein

At5g03310 92.9 100.0 0.274 auxin-responsive family protein

At5g43590 80.2 100.0 0.352 patatin, putative

At1g65300 75.5 100.0 0.030 AGL38 (AGAMOUS-LIKE 38)

At5g03840 66.6 100.0 0.286 TFL1 (TERMINAL FLOWER 1)

At1g09090 63.7 100.0 0.211 ATRBOHB (respiratory burst oxidase homolog B)

At5g43410 63.0 100.0 0.294 ethylene-responsive factor, putative

At5g10210 62.3 100.0 0.192 -

At1g71890 62.1 100.0 0.328 SUC5

At3g15650 61.7 100.0 0.291 phospholipase/carboxylesterase family protein

At1g49310 57.6 100.0 0.252 F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P

At2g33790 54.6 100.0 0.124 AGP30 (ARABINOGALACTAN PROTEIN30)

At5g40560 52.7 100.0 0.239 DegP13 (DegP protease 13)

At1g49030 49.8 100.0 0.334 F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO

At3g15353 47.8 100.0 0.313 MT3 (METALLOTHIONEIN 3)

At3g15450 47.1 100.0 0.353 F:molecular_function unknown;P:unknown;C:unknown;PBOMF

At2g40230 44.8 100.0 0.386 transferase family protein

At1g76640 44.7 100.0 0.053 calmodulin-related protein, putative

At1g67110 40.2 100.0 0.308 CYP735A2

At5g67390 38.6 100.0 0.309 F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO

At5g49630 38.1 100.0 0.300 AAP6 (AMINO ACID PERMEASE 6)

At5g43580 37.6 100.0 0.197 serine-type endopeptidase inhibitor

At4g36670 36.4 100.0 0.174 mannitol transporter, putative

At5g10230 36.0 100.0 0.042 ANNAT7 (ANNEXIN ARABIDOPSIS 7)

At2g23060 35.9 100.0 0.246 GCN5-related N-acetyltransferase (GNAT) family protein

At1g75580 35.5 100.0 0.395 auxin-responsive protein, putative

At2g46750 34.8 100.0 0.251 FAD-binding domain-containing protein

At1g29090 33.0 100.0 0.076 peptidase C1A papain family protein

At4g32870 32.8 100.0 0.247 F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPO

At3g55150 29.9 100.0 0.219 ATEXO70H1 (exocyst subunit EXO70 family protein H1)

At5g40630 29.9 100.0 0.294 ubiquitin family protein

At1g77380 29.8 100.0 0.257 AAP3

At2g47560 29.6 100.0 0.303 zinc finger (C3HC4-type RING finger) family protein

At4g09820 29.0 100.0 0.147 TT8 (TRANSPARENT TESTA 8)

At1g80520 28.7 100.0 0.475 -

At3g24460 28.7 100.0 0.354 TMS membrane family protein / tumour differentially expressed (TDE) family protein

At1g59740 28.5 100.0 0.341 proton-dependent oligopeptide transport (POT) family protein

At1g71880 28.4 100.0 0.323 SUC1 (Sucrose-proton symporter 1)

At3g51030 27.9 100.0 0.333 ATTRX1

At1g77690 27.7 100.0 0.336 LAX3 (LIKE AUX1 3)

At3g46500 26.3 99.9 0.307 oxidoreductase, 2OG-Fe(II) oxygenase family protein

At4g10380 26.3 99.9 0.303 NIP5

At3g12890 26.0 99.9 0.386 ASML2 (ACTIVATOR OF SPOMIN::LUC2)

At1g67980 25.6 99.9 0.160 CCoAMT

At1g12180 25.5 99.9 0.036 -

At4g27450 24.4 99.9 0.250 F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus, plasma membrane;PBOMF

At1g80440 24.2 99.9 0.252 kelch repeat-containing F-box family protein

At3g18560 23.7 99.9 0.291 F:unknown;P:unknown;C:unknown;P

At2g17450 23.3 99.9 0.355 RHA3A

At3g51810 23.0 99.9 0.068 EM1 (LATE EMBRYOGENESIS ABUNDANT 1)

At2g40000 22.9 99.9 0.246 HSPRO2 (ARABIDOPSIS ORTHOLOG OF SUGAR BEET HS1 PRO-1 2)

At3g46800 22.8 99.9 0.380 DC1 domain-containing protein

At5g06170 22.8 99.9 0.317 ATSUC9 (Sucrose-proton symporter 9)

At1g29080 22.3 99.9 0.030 peptidase C1A papain family protein

At4g28090 22.2 99.9 0.416 sks10 (SKU5 Similar 10)

At2g40200 21.2 99.9 0.384 basic helix-loop-helix (bHLH) family protein

At1g61610 21.1 99.9 0.178 S-locus lectin protein kinase family protein

At1g35910 20.2 99.9 0.106 trehalose-6-phosphate phosphatase, putative

At1g34760 19.3 99.9 0.275 GRF11 (GENERAL REGULATORY FACTOR 11)

At2g31070 19.3 99.9 0.351 TCP10 (TCP DOMAIN PROTEIN 10)

At3g50630 19.1 99.9 0.495 KRP2 (KIP-RELATED PROTEIN 2)

At5g60780 19.1 99.9 0.389 ATNRT2.3

At5g16570 19.0 99.9 0.190 GLN1

At1g06420 18.9 99.9 0.193 F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPB

At3g02940 18.9 99.9 0.280 MYB107 (myb domain protein 107)

At5g64410 18.8 99.9 0.394 OPT4 (OLIGOPEPTIDE TRANSPORTER 4)

At1g21230 18.7 99.9 0.166 WAK5 (WALL ASSOCIATED KINASE 5)

At2g41290 18.1 99.9 0.251 strictosidine synthase family protein

At1g65480 17.9 99.9 0.362 FT (FLOWERING LOCUS T)

At5g52050 17.9 99.9 0.083 MATE efflux protein-related

At1g66230 17.8 99.9 0.340 MYB20 (myb domain protein 20)

At5g23350 17.7 99.9 0.415 GRAM domain-containing protein / ABA-responsive protein-related

At2g26160 17.6 99.9 0.255 -

At5g59810 17.5 99.9 0.147 SBT5.4

At3g23650 17.4 99.9 0.252 protein kinase-related

At5g11320 17.1 99.9 0.352 YUC4 (YUCCA4)

At1g68450 16.9 99.9 0.303 VQ motif-containing protein

At5g53670 16.8 99.9 0.291 F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P

At2g29995 16.7 99.9 0.274 F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P

At3g47800 16.5 99.9 0.303 aldose 1-epimerase family protein

At5g50910 16.5 99.9 0.237 F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P

At4g37610 16.3 99.9 0.318 BT5 (BTB AND TAZ DOMAIN PROTEIN 5)

At5g16560 16.0 99.9 0.369 KAN (KANADI)

At2g26960 15.9 99.9 0.296 AtMYB81 (myb domain protein 81)

At1g06520 14.8 99.9 0.377 GPAT1 (GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 1)

At2g06700 14.8 99.9 0.181 transposable element gene

At3g52540 14.8 99.9 0.380 OFP18 (OVATE FAMILY PROTEIN 18)

At4g35480 14.6 99.9 0.279 RHA3B

At5g60890 14.6 99.9 0.279 MYB34 (MYB DOMAIN PROTEIN 34)

Regulated gene	Std.R.	P.R.	Co-X	Gene name/alias
At1g54890	101.7	100.0	0.189	late embryogenesis abundant protein-related / LEA protein-related
At3g47380	99.2	100.0	0.202	invertase/pectin methylesterase inhibitor family protein
At5g03310	92.9	100.0	0.274	auxin-responsive family protein
At5g43590	80.2	100.0	0.352	patatin, putative
At1g65300	75.5	100.0	0.030	AGL38 (AGAMOUS-LIKE 38)
At5g03840	66.6	100.0	0.286	TFL1 (TERMINAL FLOWER 1)
At1g09090	63.7	100.0	0.211	ATRBOHB (respiratory burst oxidase homolog B)
At5g43410	63.0	100.0	0.294	ethylene-responsive factor, putative
At5g10210	62.3	100.0	0.192	-
At1g71890	62.1	100.0	0.328	SUC5
At3g15650	61.7	100.0	0.291	phospholipase/carboxylesterase family protein
At1g49310	57.6	100.0	0.252	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P
At2g33790	54.6	100.0	0.124	AGP30 (ARABINOGALACTAN PROTEIN30)
At5g40560	52.7	100.0	0.239	DegP13 (DegP protease 13)
At1g49030	49.8	100.0	0.334	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO
At3g15353	47.8	100.0	0.313	MT3 (METALLOTHIONEIN 3)
At3g15450	47.1	100.0	0.353	F:molecular_function unknown;P:unknown;C:unknown;PBOMF
At2g40230	44.8	100.0	0.386	transferase family protein
At1g76640	44.7	100.0	0.053	calmodulin-related protein, putative
At1g67110	40.2	100.0	0.308	CYP735A2
At5g67390	38.6	100.0	0.309	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO
At5g49630	38.1	100.0	0.300	AAP6 (AMINO ACID PERMEASE 6)
At5g43580	37.6	100.0	0.197	serine-type endopeptidase inhibitor
At4g36670	36.4	100.0	0.174	mannitol transporter, putative
At5g10230	36.0	100.0	0.042	ANNAT7 (ANNEXIN ARABIDOPSIS 7)
At2g23060	35.9	100.0	0.246	GCN5-related N-acetyltransferase (GNAT) family protein
At1g75580	35.5	100.0	0.395	auxin-responsive protein, putative
At2g46750	34.8	100.0	0.251	FAD-binding domain-containing protein
At1g29090	33.0	100.0	0.076	peptidase C1A papain family protein
At4g32870	32.8	100.0	0.247	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPO
At3g55150	29.9	100.0	0.219	ATEXO70H1 (exocyst subunit EXO70 family protein H1)
At5g40630	29.9	100.0	0.294	ubiquitin family protein
At1g77380	29.8	100.0	0.257	AAP3
At2g47560	29.6	100.0	0.303	zinc finger (C3HC4-type RING finger) family protein
At4g09820	29.0	100.0	0.147	TT8 (TRANSPARENT TESTA 8)
At1g80520	28.7	100.0	0.475	-
At3g24460	28.7	100.0	0.354	TMS membrane family protein / tumour differentially expressed (TDE) family protein
At1g59740	28.5	100.0	0.341	proton-dependent oligopeptide transport (POT) family protein
At1g71880	28.4	100.0	0.323	SUC1 (Sucrose-proton symporter 1)
At3g51030	27.9	100.0	0.333	ATTRX1
At1g77690	27.7	100.0	0.336	LAX3 (LIKE AUX1 3)
At3g46500	26.3	99.9	0.307	oxidoreductase, 2OG-Fe(II) oxygenase family protein
At4g10380	26.3	99.9	0.303	NIP5
At3g12890	26.0	99.9	0.386	ASML2 (ACTIVATOR OF SPOMIN::LUC2)
At1g67980	25.6	99.9	0.160	CCoAMT
At1g12180	25.5	99.9	0.036	-
At4g27450	24.4	99.9	0.250	F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus, plasma membrane;PBOMF
At1g80440	24.2	99.9	0.252	kelch repeat-containing F-box family protein
At3g18560	23.7	99.9	0.291	F:unknown;P:unknown;C:unknown;P
At2g17450	23.3	99.9	0.355	RHA3A
At3g51810	23.0	99.9	0.068	EM1 (LATE EMBRYOGENESIS ABUNDANT 1)
At2g40000	22.9	99.9	0.246	HSPRO2 (ARABIDOPSIS ORTHOLOG OF SUGAR BEET HS1 PRO-1 2)
At3g46800	22.8	99.9	0.380	DC1 domain-containing protein
At5g06170	22.8	99.9	0.317	ATSUC9 (Sucrose-proton symporter 9)
At1g29080	22.3	99.9	0.030	peptidase C1A papain family protein
At4g28090	22.2	99.9	0.416	sks10 (SKU5 Similar 10)
At2g40200	21.2	99.9	0.384	basic helix-loop-helix (bHLH) family protein
At1g61610	21.1	99.9	0.178	S-locus lectin protein kinase family protein
At1g35910	20.2	99.9	0.106	trehalose-6-phosphate phosphatase, putative
At1g34760	19.3	99.9	0.275	GRF11 (GENERAL REGULATORY FACTOR 11)
At2g31070	19.3	99.9	0.351	TCP10 (TCP DOMAIN PROTEIN 10)
At3g50630	19.1	99.9	0.495	KRP2 (KIP-RELATED PROTEIN 2)
At5g60780	19.1	99.9	0.389	ATNRT2.3
At5g16570	19.0	99.9	0.190	GLN1
At1g06420	18.9	99.9	0.193	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPB
At3g02940	18.9	99.9	0.280	MYB107 (myb domain protein 107)
At5g64410	18.8	99.9	0.394	OPT4 (OLIGOPEPTIDE TRANSPORTER 4)
At1g21230	18.7	99.9	0.166	WAK5 (WALL ASSOCIATED KINASE 5)
At2g41290	18.1	99.9	0.251	strictosidine synthase family protein
At1g65480	17.9	99.9	0.362	FT (FLOWERING LOCUS T)
At5g52050	17.9	99.9	0.083	MATE efflux protein-related
At1g66230	17.8	99.9	0.340	MYB20 (myb domain protein 20)
At5g23350	17.7	99.9	0.415	GRAM domain-containing protein / ABA-responsive protein-related
At2g26160	17.6	99.9	0.255	-
At5g59810	17.5	99.9	0.147	SBT5.4
At3g23650	17.4	99.9	0.252	protein kinase-related
At5g11320	17.1	99.9	0.352	YUC4 (YUCCA4)
At1g68450	16.9	99.9	0.303	VQ motif-containing protein
At5g53670	16.8	99.9	0.291	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P
At2g29995	16.7	99.9	0.274	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P
At3g47800	16.5	99.9	0.303	aldose 1-epimerase family protein
At5g50910	16.5	99.9	0.237	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P
At4g37610	16.3	99.9	0.318	BT5 (BTB AND TAZ DOMAIN PROTEIN 5)
At5g16560	16.0	99.9	0.369	KAN (KANADI)
At2g26960	15.9	99.9	0.296	AtMYB81 (myb domain protein 81)
At1g06520	14.8	99.9	0.377	GPAT1 (GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 1)
At2g06700	14.8	99.9	0.181	transposable element gene
At3g52540	14.8	99.9	0.380	OFP18 (OVATE FAMILY PROTEIN 18)
At4g35480	14.6	99.9	0.279	RHA3B
At5g60890	14.6	99.9	0.279	MYB34 (MYB DOMAIN PROTEIN 34)

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Metabolites

Inst. Type Regulated metabolite Std.R. P.R. D.F. D.R. KaPPA-View KEGG Formula Mass Measured mass

GC-MS unknown 22.3 99.6 3/5 1 - - - - 91 83 121 148 161
GC-MS unknown 20.9 99.6 4/5 2 - - - - 155
GC-MS unknown 19.5 99.5 5/5 1 - - - - 144 123 97
GC-MS unknown 18.1 99.5 5/5 2 - - - - 103 101 117 116
GC-MS unknown 18.1 99.5 4/5 2 - - - - 236
GC-MS unknown 17.1 99.4 5/5 2 - - - - 130 114 96
GC-MS Glycine 14.3 99.2 3/5 2 KPC00575 C00037 C2H5NO2 75.03202841 102
GC-MS unknown 14.0 99.2 5/5 1 - - - - 210 88 85
GC-MS unknown 12.6 99.0 5/5 2 - - - - 91 87 119
GC-MS unknown 12.3 99.0 5/5 2 - - - - 100 89 428 171
GC-MS unknown 12.0 99.0 4/5 1 - - - - 147
LC-MS unknown 12.0 98.9 2/5 1.1 - - - 543.1720 544.1798
LC-MS unknown 10.7 98.8 1/5 1.6 - - - 622.1531 623.1609
LC-MS unknown 10.1 98.7 1/5 1.3 - - - 940.2368 941.2446
LC-MS unknown 9.6 98.6 1/5 2.0 - - - 459.1191 460.1269
LC-MS unknown 8.3 98.4 2/5 1.5 - - - 428.0759 429.0837
CE-MS unknown 103.7 100.0 1/5 2.0 - - - 334 333

CE-MS unknown 19.4 99.5 3/5 1.8 - - - 340 339

CE-MS unknown 16.3 99.4 1/5 1.0 - - - 384 383

CE-MS unknown 14.7 99.3 3/5 1.9 - - - 459 460

CE-MS unknown 10.5 99.0 5/5 1.9 - - - 119 120

Inst. Type	Regulated metabolite	Std.R.	P.R.	D.F.	D.R.	KaPPA-View	KEGG	Formula	Mass	Measured mass
GC-MS	unknown	22.3	99.6	3/5	1	-	-	-	-	91 83 121 148 161
GC-MS	unknown	20.9	99.6	4/5	2	-	-	-	-	155
GC-MS	unknown	19.5	99.5	5/5	1	-	-	-	-	144 123 97
GC-MS	unknown	18.1	99.5	5/5	2	-	-	-	-	103 101 117 116
GC-MS	unknown	18.1	99.5	4/5	2	-	-	-	-	236
GC-MS	unknown	17.1	99.4	5/5	2	-	-	-	-	130 114 96
GC-MS	Glycine	14.3	99.2	3/5	2	KPC00575	C00037	C2H5NO2	75.03202841	102
GC-MS	unknown	14.0	99.2	5/5	1	-	-	-	-	210 88 85
GC-MS	unknown	12.6	99.0	5/5	2	-	-	-	-	91 87 119
GC-MS	unknown	12.3	99.0	5/5	2	-	-	-	-	100 89 428 171
GC-MS	unknown	12.0	99.0	4/5	1	-	-	-	-	147
LC-MS	unknown	12.0	98.9	2/5	1.1	-	-	-	543.1720	544.1798
LC-MS	unknown	10.7	98.8	1/5	1.6	-	-	-	622.1531	623.1609
LC-MS	unknown	10.1	98.7	1/5	1.3	-	-	-	940.2368	941.2446
LC-MS	unknown	9.6	98.6	1/5	2.0	-	-	-	459.1191	460.1269
LC-MS	unknown	8.3	98.4	2/5	1.5	-	-	-	428.0759	429.0837
CE-MS	unknown	103.7	100.0	1/5	2.0	-	-	-	334	333
CE-MS	unknown	19.4	99.5	3/5	1.8	-	-	-	340	339
CE-MS	unknown	16.3	99.4	1/5	1.0	-	-	-	384	383
CE-MS	unknown	14.7	99.3	3/5	1.9	-	-	-	459	460
CE-MS	unknown	10.5	99.0	5/5	1.9	-	-	-	119	120

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Genes

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Query	At1g78950
Description	beta-amyrin synthase, putative
RAFL ID	pda11623
C.R.	D
R.O.X.L.	18/18 lines
P.O.X.	92.3

Maroon	over-expressed gene
Orange	gene
Yellow	metabolite, lipid mode, GC-MS
Cyan	metabolite, polar mode, GC-MS
Blue	metabolite, LC-MS
Green	metabolite, negative mode, CE-MS
Limegreen	metabolite, positive mode, CE-MS

The prediction of regulatory relationships associated with At1g78950

QueryAt1g78950 Descriptionbeta-amyrin synthase, putative RAFL IDpda11623 C.R.D R.O.X.L.18/18 lines P.O.X. 92.3

Jump to MassBase to obtain the original metabolomics dataset of this over-expression experiment.

Click here to show genes regulating the gene of interest.

Click here to extract genes up-regulated and also co-expressed.

Maroonover-expressed gene Orangegene Yellowmetabolite, lipid mode, GC-MS Cyanmetabolite, polar mode, GC-MS Bluemetabolite, LC-MS Greenmetabolite, negative mode, CE-MS Limegreenmetabolite, positive mode, CE-MS

Candidate elements regulated by At1g78950

Genes

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Metabolites

TopGenes

Query At1g78950

Description beta-amyrin synthase, putative

RAFL ID pda11623

C.R. D

R.O.X.L. 18/18 lines

P.O.X. 92.3

Maroon over-expressed gene

Orange gene

Yellow metabolite, lipid mode, GC-MS

Cyan metabolite, polar mode, GC-MS

Blue metabolite, LC-MS

Green metabolite, negative mode, CE-MS

Limegreen metabolite, positive mode, CE-MS

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Genes