Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0005140

Physical Location & Seq

Genomic Coordinates Reverse (-)

1590182 .. 1592703

Gene Structure 2522 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT2G04560.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1383 bp

ATGATGTTTCAGATTACAAAGAGCAAACTTCGTTTCCCTCTCTCAACATTCACTAAGAGATACTCATCATTTCAAGCTGCTAAATCGGTGATTGACAAGGCTGCAATCGATGGGGAGCTCAGAGTTTTCATCGTCTCCGGCGAAGTTTCCGGCGATAACATCGGTTCTCGTCTTATGTCCTCGCTTAAAAAGCTCTCTCCTTTACCCATCCGTTTCAATGGAGTTGGAGGATCCTTGATGTGCAAGAAAGGATTGAATTCGTTGTTTCCAATGGAGGATTTGGCTGTAATGGGTGTATGGGAGCTTTTGCCACATTTGTATAAATTCCGTGTGAAGTTGAAGGAGACTATTGATGCTGCGGTTAAGTTTAAGCCACATGTTGTTGTGACTGTTGATTCAAAGGGCTTCTCTTTCCGTTTACTTAAGGAGTTACGAGCTAGATACAAGCAGCAGCGGTTGGAAAATTGTTCTGTGCATTTTCACTATGTCGCACCGTCGTTCTGGGCTTGGAAAGGAGGAGAGTCAAGACTTGGAGGTCTGTCTGAATTCGTTGATCATCTTTTCTGCATTCTTCCGAACGAGGAAAGGGTTTGTAGGGAGCATGGGGTTGAAGCAACGTTTGTTGGACATCCTGTTCTTGAGGATGCTTCTGAGTTCGACCTTGTGAGAAGGTGCAAGCCTCAGGAACTGAAACTTGAAGGCTTGAGTTTTAGCGAACACTCAATACCTTCTGACTCCACTGTCATTTCGGTTCTACCGGGGAGCAGATTACAAGAAGTTGAAAGAATGCTACCCATATTTTCCAAAGCAATGAAGCTACTCAAAGATCCGTTTCCAAAACTAGTAACGCTTATCCACGTCGCATCCAATAATCAAGTTGATCATTACATTGGAGAATCCTTCAGTGAGTGGCCAGTTCCAGCAATACTAGTCCCTAGTGGATCCACTCAGCTTAAATATGATGCCTTTGGCGCGAGTCAGGCTGCATTATGCACTTCAGGAACAGTTGCTGTTGAGTTGCAGCTTGCTCATCTACCTTCCCTTGTTGCTTACCGAGCACATTTTCTAACAGAGCTATTAATCCGTTACAAAGCCAAGATACCTTATATTTCTCTCCCAAACATTCTCCTAGACTCCCCAATCATTCCTGAAGCTTTGTTTCAAGCTTGTAACCCTTCAAATCTCGCATCGATACTAGAGAGACTACTCTTGGATGAAAAGATGAGAGAAAGACAAGTTGTTGGTGCTGAGAAGTTGATACAGCTCTTGCATCCGTCAGAAAGCAGAATGGGCAACTCAATTCATTGCACTGGTTTGGAATCTCATCGATATACGCCAAGCATTTTAGCAGCTTCGACTATTCTTAGTTATGCCAGGCGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005488 GO:0005543 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005829 GO:0005975 GO:0006040 GO:0006629 GO:0006643 GO:0006644 GO:0006664 GO:0006793 GO:0006796 GO:0008150 GO:0008152 GO:0008194 GO:0008289 GO:0008610 GO:0008654 GO:0008915 GO:0009058 GO:0009245 GO:0009247 GO:0009311 GO:0009312 GO:0009987 GO:0016051 GO:0016740 GO:0016757 GO:0016758 GO:0019637 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044424 GO:0044444 GO:0044464 GO:0046467 GO:0046493 GO:0071704 GO:0090407 GO:1901135 GO:1901137 GO:1901269 GO:1901271 GO:1901576 GO:1903509 GO:2001289

KEGG Pathways

Metabolic & Signaling

ko00540 ko01100 map00540 map01100

Pfam Domains

Protein Families

LpxB

Protein Analysis

460

Amino Acids

51.46

Weight (kDa)

9.03

Isoelectric Point (pI)

41.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LpxB	PF02684	42 - 433	4.2e-75	Lipid-A-disaccharide synthetase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005140)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G04560
fragaria_vesca	FvH4_6g41870 FvH4_6g41870 FvH4_6g41870 FvH4_6g41870 FvH4_6g41870 FvH4_6g41870
malus_domestica	MD09G1116800.v1.1
prunus_persica	Prupe.3G208000_v2.0.a1 Prupe.3G208000_v2.0.a1 Prupe.3G208000_v2.0.a1 Prupe.3G208000_v2.0.a1 Prupe.3G208000_v2.0.a1
pyrus_communis	pycom09g04140 pycom17g10060
rosa_chinensis	RchiOBHm_Chr2g0157701 RchiOBHm_Chr2g0157711
rosa_laevigata	RLG00000021009
rosa_multiflora	Rmu_sc0001275.1_g000003
rosa_roxburghii	Rroxscaffold_2G00092020
rosa_rugosa	Rorug02G0462900
rosa_samantha	Rh2AG527200 Rh2AG527300 Rh2BG542000 Rh2BG542100 Rh2CG511700 Rh2CG511800 Rh2DG550600 Rh2DG550700
rosa_wichuraiana	Rw2G043660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	534, 740
AccII	CGCG	1 cut(s)	974
AciI	CCGC	2 cut(s)	359, 454
AclI	AACGTT	1 cut(s)	617
AclWI	GGATC	5 cut(s)	225, 238, 821, 936, 949
AcoI	YGGCCR	1 cut(s)	911
AcsI	RAATTY	3 cut(s)	256, 323, 545
AcuI	CTGAAG	3 cut(s)	886, 981, 1170
AflII	CTTAAG	1 cut(s)	422
AflIII	ACRYGT	1 cut(s)	376
AhlI	ACTAGT	2 cut(s)	841, 928
AjiI	CACGTC	1 cut(s)	859
AjnI	CCWGG	1 cut(s)	1373
AloI	GAACNNNNNNTCC	2 cut(s)	618, 650
Alw21I	GWGCWC	2 cut(s)	120, 1060
Alw26I	GTCTC	3 cut(s)	139, 338, 1195
AlwI	GGATC	5 cut(s)	225, 238, 821, 936, 949
AlwNI	CAGNNNCTG	2 cut(s)	688, 1010
AoxI	GGCC	1 cut(s)	911
ApeKI	GCWGC	8 cut(s)	77, 101, 356, 448, 451, 983, 1021, 1349
ApoI	RAATTY	3 cut(s)	256, 323, 545
AseI	ATTAAT	1 cut(s)	1079
AspLEI	GCGC	1 cut(s)	974
AsuC2I	CCSGG	1 cut(s)	759
AsuHPI	GGTGA	1 cut(s)	100
AxyI	CCTNAGG	1 cut(s)	681
BalI	TGGCCA	1 cut(s)	913
BamHI	GGATCC	2 cut(s)	230, 941
BanII	GRGCYC	1 cut(s)	120
Bbv12I	GWGCWC	2 cut(s)	120, 1060
BbvI	GCAGC	8 cut(s)	64, 88, 343, 460, 463, 970, 1033, 1361
BccI	CCATC	2 cut(s)	104, 215
BciT130I	CCWGG	1 cut(s)	1375
BclI	TGATCA	2 cut(s)	553, 880
BcnI	CCSGG	1 cut(s)	759
BcoDI	GTCTC	3 cut(s)	139, 338, 1195
BcuI	ACTAGT	2 cut(s)	841, 928
BfaI	CTAG	6 cut(s)	438, 842, 929, 936, 1130, 1196
BfrI	CTTAAG	1 cut(s)	422
BisI	GCNGC	8 cut(s)	78, 102, 357, 449, 452, 984, 1022, 1350
BlsI	GCNGC	8 cut(s)	79, 103, 358, 450, 453, 985, 1023, 1351
Bme1390I	CCNGG	2 cut(s)	759, 1375
BmgBI	CACGTC	1 cut(s)	859
BmiI	GGNNCC	2 cut(s)	232, 943
BmrFI	CCNGG	2 cut(s)	759, 1375
BmsI	GCATC	6 cut(s)	343, 634, 872, 952, 1196, 1279
BpuEI	CTTGAG	2 cut(s)	659, 724
BpuMI	CCSGG	1 cut(s)	759
Bsa29I	ATCGAT	3 cut(s)	108, 1190, 1327
BsaBI	GATNNNNATC	1 cut(s)	64
BsaJI	CCNNGG	1 cut(s)	758
Bse1I	ACTGG	2 cut(s)	914, 1315
Bse21I	CCTNAGG	1 cut(s)	681
Bse3DI	GCAATG	2 cut(s)	816, 1303
Bse8I	GATNNNNATC	1 cut(s)	64
BseBI	CCWGG	1 cut(s)	1375
BseCI	ATCGAT	3 cut(s)	108, 1190, 1327
BseDI	CCNNGG	1 cut(s)	758
BseGI	GGATG	6 cut(s)	207, 628, 649, 863, 1219, 1270
BseJI	GATNNNNATC	1 cut(s)	64
BseMI	GCAATG	2 cut(s)	816, 1303
BseMII	CTCAG	5 cut(s)	133, 642, 695, 962, 1239
BseNI	ACTGG	2 cut(s)	914, 1315
BseRI	GAGGAG	1 cut(s)	531
BseXI	GCAGC	8 cut(s)	64, 88, 343, 460, 463, 970, 1033, 1361
Bsh1236I	CGCG	1 cut(s)	974
BshFI	GGCC	1 cut(s)	913
BshVI	ATCGAT	3 cut(s)	108, 1190, 1327
BsiHKAI	GWGCWC	2 cut(s)	120, 1060
BsiSI	CCGG	3 cut(s)	138, 150, 758
BslFI	GGGAC	1 cut(s)	917
BsmAI	GTCTC	3 cut(s)	139, 338, 1195
BsmBI	CGTCTC	1 cut(s)	139
BsmFI	GGGAC	1 cut(s)	917
BsmI	GAATGC	2 cut(s)	567, 792
BsnI	GGCC	1 cut(s)	913
Bsp1286I	GDGCHC	2 cut(s)	120, 1060
Bsp143I	GATC	5 cut(s)	230, 553, 826, 880, 941
BspACI	CCGC	2 cut(s)	359, 454
BspANI	GGCC	1 cut(s)	913
BspCNI	CTCAG	5 cut(s)	132, 643, 694, 961, 1240
BspDI	ATCGAT	3 cut(s)	108, 1190, 1327
BspFNI	CGCG	1 cut(s)	974
BspLI	GGNNCC	2 cut(s)	232, 943
BspPI	GGATC	5 cut(s)	225, 238, 821, 936, 949
BspTI	CTTAAG	1 cut(s)	422
BsrDI	GCAATG	2 cut(s)	816, 1303
BsrI	ACTGG	2 cut(s)	914, 1315
BssECI	CCNNGG	1 cut(s)	758
BssMI	GATC	5 cut(s)	230, 553, 826, 880, 941
Bst2UI	CCWGG	1 cut(s)	1375
Bst4CI	ACNGT	4 cut(s)	391, 495, 742, 1006
BstAFI	CTTAAG	1 cut(s)	422
BstC8I	GCNNGC	2 cut(s)	677, 1026
BstDEI	CTNAG	7 cut(s)	54, 119, 651, 681, 948, 1248, 1364
BstF5I	GGATG	6 cut(s)	207, 628, 649, 863, 1219, 1270
BstFNI	CGCG	1 cut(s)	974
BstHHI	GCGC	1 cut(s)	974
BstKTI	GATC	5 cut(s)	233, 556, 829, 883, 944
BstMAI	GTCTC	3 cut(s)	139, 338, 1195
BstMBI	GATC	5 cut(s)	230, 553, 826, 880, 941
BstMWI	GCNNNNNNNGC	5 cut(s)	190, 971, 980, 1055, 1290
BstNI	CCWGG	1 cut(s)	1375
BstNSI	RCATGY	1 cut(s)	380
BstSCI	CCNGG	2 cut(s)	757, 1373
BstUI	CGCG	1 cut(s)	974
BstV1I	GCAGC	8 cut(s)	64, 88, 343, 460, 463, 970, 1033, 1361
BstX2I	RGATCY	3 cut(s)	230, 826, 941
BstYI	RGATCY	3 cut(s)	230, 826, 941
Bsu15I	ATCGAT	3 cut(s)	108, 1190, 1327
Bsu36I	CCTNAGG	1 cut(s)	681
BsuRI	GGCC	1 cut(s)	913
BsuTUI	ATCGAT	3 cut(s)	108, 1190, 1327
BtrI	CACGTC	1 cut(s)	859
BtsCI	GGATG	6 cut(s)	207, 628, 649, 863, 1219, 1270
BtsIMutI	CAGTG	3 cut(s)	738, 910, 1308
Cac8I	GCNNGC	2 cut(s)	677, 1026
CaiI	CAGNNNCTG	2 cut(s)	688, 1010
CfoI	GCGC	1 cut(s)	974
ClaI	ATCGAT	3 cut(s)	108, 1190, 1327
CviAII	CATG	2 cut(s)	377, 602
DdeI	CTNAG	7 cut(s)	54, 119, 651, 681, 948, 1248, 1364
DpnI	GATC	5 cut(s)	232, 555, 828, 882, 943
DpnII	GATC	5 cut(s)	230, 553, 826, 880, 941
DrdI	GACNNNNNNGTC	2 cut(s)	534, 740
DseDI	GACNNNNNNGTC	2 cut(s)	534, 740
EaeI	YGGCCR	1 cut(s)	911
Ecl136II	GAGCTC	1 cut(s)	118
Eco24I	GRGCYC	1 cut(s)	120
Eco53kI	GAGCTC	1 cut(s)	118
Eco57I	CTGAAG	3 cut(s)	886, 981, 1170
Eco81I	CCTNAGG	1 cut(s)	681
EcoICRI	GAGCTC	1 cut(s)	118
EcoRI	GAATTC	2 cut(s)	256, 545
EcoRII	CCWGG	1 cut(s)	1373
EcoT38I	GRGCYC	1 cut(s)	120
Esp3I	CGTCTC	1 cut(s)	139
FaeI	CATG	2 cut(s)	380, 605
FaqI	GGGAC	1 cut(s)	917
FatI	CATG	2 cut(s)	376, 601
FbaI	TGATCA	2 cut(s)	553, 880
Fnu4HI	GCNGC	8 cut(s)	78, 102, 357, 449, 452, 984, 1022, 1350
FokI	GGATG	6 cut(s)	194, 615, 656, 850, 1226, 1257
FriOI	GRGCYC	1 cut(s)	120
Fsp4HI	GCNGC	8 cut(s)	78, 102, 357, 449, 452, 984, 1022, 1350
FspBI	CTAG	6 cut(s)	438, 842, 929, 936, 1130, 1196
GlaI	GCGC	1 cut(s)	973
GluI	GCNGC	8 cut(s)	78, 102, 357, 449, 452, 984, 1022, 1350
HaeIII	GGCC	1 cut(s)	913
HapII	CCGG	3 cut(s)	138, 150, 758
HhaI	GCGC	1 cut(s)	974
Hin1II	CATG	2 cut(s)	380, 605
Hin6I	GCGC	1 cut(s)	972
HinP1I	GCGC	1 cut(s)	972
HindIII	AAGCTT	2 cut(s)	1152, 1164
HinfI	GANTC	7 cut(s)	395, 521, 734, 896, 976, 1133, 1319
HpaII	CCGG	3 cut(s)	138, 150, 758
HphI	GGTGA	1 cut(s)	100
Hpy166II	GTNNAC	1 cut(s)	419
Hpy188I	TCNGA	7 cut(s)	12, 122, 544, 576, 652, 733, 1279
Hpy188III	TCNNGA	5 cut(s)	525, 638, 683, 999, 1148
Hpy8I	GTNNAC	1 cut(s)	419
Hpy99I	CGWCG	2 cut(s)	499, 863
HpyAV	CCTTC	7 cut(s)	334, 663, 692, 738, 910, 1047, 1185
HpyCH4III	ACNGT	4 cut(s)	391, 495, 742, 1006
HpyCH4IV	ACGT	2 cut(s)	617, 858
HpyF10VI	GCNNNNNNNGC	5 cut(s)	190, 971, 980, 1055, 1290
HpyF3I	CTNAG	7 cut(s)	54, 119, 651, 681, 948, 1248, 1364
HpySE526I	ACGT	2 cut(s)	617, 858
Hsp92II	CATG	2 cut(s)	380, 605
HspAI	GCGC	1 cut(s)	972
Ksp22I	TGATCA	2 cut(s)	553, 880
Kzo9I	GATC	5 cut(s)	230, 553, 826, 880, 941
LmnI	GCTCC	4 cut(s)	115, 301, 598, 762
Lsp1109I	GCAGC	8 cut(s)	64, 88, 343, 460, 463, 970, 1033, 1361
LweI	GCATC	6 cut(s)	343, 634, 872, 952, 1196, 1279
MaeI	CTAG	6 cut(s)	438, 842, 929, 936, 1130, 1196
MaeII	ACGT	2 cut(s)	617, 858
MaeIII	GTNAC	5 cut(s)	385, 429, 844, 1085, 1169
MalI	GATC	5 cut(s)	232, 555, 828, 882, 943
MboI	GATC	5 cut(s)	230, 553, 826, 880, 941
MboII	GAAGA	1 cut(s)	563
MflI	RGATCY	3 cut(s)	230, 826, 941
MhlI	GDGCHC	2 cut(s)	120, 1060
MlsI	TGGCCA	1 cut(s)	913
MluCI	AATT	5 cut(s)	256, 323, 463, 545, 1299
MluNI	TGGCCA	1 cut(s)	913
MlyI	GAGTC	4 cut(s)	530, 728, 985, 1127
MmeI	TCCRAC	3 cut(s)	205, 438, 604
MnlI	CCTC	9 cut(s)	48, 190, 221, 268, 509, 527, 574, 634, 690
Mox20I	TGGCCA	1 cut(s)	913
MscI	TGGCCA	1 cut(s)	913
MseI	TTAA	7 cut(s)	186, 363, 369, 423, 954, 1079, 1381
Msp20I	TGGCCA	1 cut(s)	913
MspA1I	CMGCKG	1 cut(s)	454
MspCI	CTTAAG	1 cut(s)	422
MspI	CCGG	3 cut(s)	138, 150, 758
MspR9I	CCNGG	2 cut(s)	759, 1375
Mva1269I	GAATGC	2 cut(s)	567, 792
MvaI	CCWGG	1 cut(s)	1375
MvnI	CGCG	1 cut(s)	974
MwoI	GCNNNNNNNGC	5 cut(s)	190, 971, 980, 1055, 1290
NciI	CCSGG	1 cut(s)	759
NdeII	GATC	5 cut(s)	230, 553, 826, 880, 941
NlaIII	CATG	2 cut(s)	380, 605
NlaIV	GGNNCC	2 cut(s)	232, 943
NmuCI	GTSAC	1 cut(s)	385
NspI	RCATGY	1 cut(s)	380
PciI	ACATGT	1 cut(s)	376
PcsI	WCGNNNNNNNCGW	1 cut(s)	138
PctI	GAATGC	2 cut(s)	567, 792
PfeI	GAWTC	3 cut(s)	395, 896, 1319
PkrI	GCNGC	8 cut(s)	79, 103, 358, 450, 453, 985, 1023, 1351
PleI	GAGTC	4 cut(s)	529, 728, 984, 1127
PpsI	GAGTC	4 cut(s)	529, 728, 984, 1127
PscI	ACATGT	1 cut(s)	376
PshBI	ATTAAT	1 cut(s)	1079
Psp124BI	GAGCTC	1 cut(s)	120
Psp1406I	AACGTT	1 cut(s)	617
Psp6I	CCWGG	1 cut(s)	1373
PspGI	CCWGG	1 cut(s)	1373
PspN4I	GGNNCC	2 cut(s)	232, 943
PsrI	GAACNNNNNNTAC	2 cut(s)	708, 740
PstNI	CAGNNNCTG	2 cut(s)	688, 1010
PsuI	RGATCY	3 cut(s)	230, 826, 941
SacI	GAGCTC	1 cut(s)	120
SaqAI	TTAA	7 cut(s)	186, 363, 369, 423, 954, 1079, 1381
SatI	GCNGC	8 cut(s)	78, 102, 357, 449, 452, 984, 1022, 1350
Sau3AI	GATC	5 cut(s)	230, 553, 826, 880, 941
SchI	GAGTC	4 cut(s)	530, 728, 985, 1127
ScrFI	CCNGG	2 cut(s)	759, 1375
SduI	GDGCHC	2 cut(s)	120, 1060
SfaNI	GCATC	6 cut(s)	343, 634, 872, 952, 1196, 1279
SmlI	CTYRAG	3 cut(s)	422, 638, 703
SmoI	CTYRAG	3 cut(s)	422, 638, 703
SpeI	ACTAGT	2 cut(s)	841, 928
Sse9I	AATT	5 cut(s)	256, 323, 463, 545, 1299
SsiI	CCGC	2 cut(s)	359, 454
SspMI	CTAG	6 cut(s)	438, 842, 929, 936, 1130, 1196
SstI	GAGCTC	1 cut(s)	120
StyD4I	CCNGG	2 cut(s)	757, 1373
TaaI	ACNGT	4 cut(s)	391, 495, 742, 1006
TaiI	ACGT	2 cut(s)	620, 861
TaqI	TCGA	5 cut(s)	108, 657, 1190, 1327, 1355
TasI	AATT	5 cut(s)	256, 323, 463, 545, 1299
TfiI	GAWTC	3 cut(s)	395, 896, 1319
Tru1I	TTAA	7 cut(s)	186, 363, 369, 423, 954, 1079, 1381
Tru9I	TTAA	7 cut(s)	186, 363, 369, 423, 954, 1079, 1381
TscAI	CASTG	3 cut(s)	745, 910, 1315
TseFI	GTSAC	1 cut(s)	385
TseI	GCWGC	8 cut(s)	77, 101, 356, 448, 451, 983, 1021, 1349
Tsp45I	GTSAC	1 cut(s)	385
TspDTI	ATGAA	4 cut(s)	118, 827, 1230, 1292
TspGWI	ACGGA	6 cut(s)	200, 317, 404, 819, 1073, 1263
TspRI	CASTG	3 cut(s)	745, 910, 1315
Vha464I	CTTAAG	1 cut(s)	422
VspI	ATTAAT	1 cut(s)	1079
XapI	RAATTY	3 cut(s)	256, 323, 545
XceI	RCATGY	1 cut(s)	380
XspI	CTAG	6 cut(s)	438, 842, 929, 936, 1130, 1196

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.