Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr17

Orthogroup ID

OG0005140

Physical Location & Seq

Genomic Coordinates Forward (+)

7771070 .. 7773639

Gene Structure 2570 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1104 bp

ATGATCAGAGTGAAGCTGCTGGAGACAATAGAGGCTGCTCTTCTGTTTCAATCTCATGTTGTTATGACTGTGGATTCCAAGGGTTTCTCTTTCCATCTGTTAAAAGAGTTATGGGCTAGGTACAATCGGCAAGGATTAAATGCTCTGGTACACTTCCATTATGTAGCACCGTCGTTTTGGGCTTGGAAAGGGGGTGAAGCAAGACTCCGAGGCCTGGTTCAATTTGTGGAACATGTCTTGTGTAAACTTCCTAATGAAGAAGAAGTTTGCAGATCAAATGGACTGGCTGCAACCTTTGTAGGCCACCCCAGTTTGGAGGATGTTTGGGAGTTGAATTCGAAGGAAACTTCACCCCATGAATGGAAGATGGAAGGAAACTGCGAAGATTTCCGAAGGAAATATGCAATGCCTGCAGGAGCCAAAGTCATTTCCTTGCTTCCTGGAAGCAGATTCCAAGAGATCACCAGAATACTTTCCATCTTCACAAACGCTATGGCATTATTACAAGTGTCATTTCTCAAGTTAGTAACGGTCATCCATGTCACTCCCAATCAGCATGTGAAGAACTATGTCACTGGAATCACTAACAAGTGGCCTGTGCCTGCTATATTGACTCCAGGAGGATCCCTGCACCAAAAATATGATGCATTCAGTGCAAGTAGCGTTGCGTTATGTGCTTCTGGAACAGTTGCTTTAGAGATGCAGCTTGCACGGCTACCATGCGTAGTCGCCTATTCTCATTTCCTAACTGAGCTGATTATTCGTTATGAAGCCAAGGTACCTATCGTCTCCCTCCCAAATGTTCTCATGGATTCCCCTATTATGCCCGAAGCTCTCTTGCAATCTTGTACTCTGACAAACCTAGCCTCATTGATGTTGGACTTGATACATGCCAATGGCCTCCGAGAAAAACAGATTGTTGCCACGGAAAAGGTTATCAGACTTCTATGCGCTCCGGCCAGAAATTTAGATCCGTTGGCAGAGCGGCATCAAGGAGGCGGGTTTTCCCGCAACACACCGAGTAAGATAGCAGCTACTGCAGTACTGCACCATGCAAAGCCATGGCTGTCATCTGTGGGATGTCATTACTATACAAATGTTTAA

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

368

Amino Acids

40.84

Weight (kDa)

8.84

Isoelectric Point (pI)

41.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LpxB	PF02684	14 - 318	4.6e-41	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)
Acc65I	GGTACC	1 cut(s)	778
AccB1I	GGYRCC	1 cut(s)	778
AccBSI	CCGCTC	1 cut(s)	985
AciI	CCGC	3 cut(s)	985, 999, 1009
AclWI	GGATC	3 cut(s)	618, 631, 965
AcoI	YGGCCR	1 cut(s)	957
AcsI	RAATTY	2 cut(s)	334, 964
AfaI	GTAC	5 cut(s)	122, 150, 780, 850, 1044
AfiI	CCNNNNNNNGG	3 cut(s)	214, 313, 360
AflIII	ACRYGT	1 cut(s)	232
AgsI	TTSAA	3 cut(s)	50, 221, 334
AjnI	CCWGG	3 cut(s)	213, 439, 616
AluBI	AGCT	5 cut(s)	16, 706, 754, 833, 1034
AluI	AGCT	5 cut(s)	16, 706, 754, 833, 1034
Alw26I	GTCTC	2 cut(s)	17, 793
AlwI	GGATC	3 cut(s)	618, 631, 965
AlwNI	CAGNNNCTG	1 cut(s)	1037
AoxI	GGCC	5 cut(s)	211, 301, 593, 898, 957
ApeKI	GCWGC	5 cut(s)	16, 35, 287, 703, 1031
ApoI	RAATTY	2 cut(s)	334, 964
Asp700I	GAANNNNTTC	1 cut(s)	472
Asp718I	GGTACC	1 cut(s)	778
AspLEI	GCGC	1 cut(s)	953
AsuHPI	GGTGA	3 cut(s)	206, 342, 454
AsuII	TTCGAA	1 cut(s)	338
BamHI	GGATCC	1 cut(s)	623
BanI	GGYRCC	1 cut(s)	778
BarI	GAAGNNNNNNTAC	2 cut(s)	762, 794
BbvI	GCAGC	5 cut(s)	3, 22, 274, 715, 1043
BccI	CCATC	3 cut(s)	102, 361, 485
BceAI	ACGGC	1 cut(s)	728
BciT130I	CCWGG	3 cut(s)	215, 441, 618
BclI	TGATCA	1 cut(s)	3
BcoDI	GTCTC	2 cut(s)	17, 793
BfaI	CTAG	2 cut(s)	117, 863
BfmI	CTRYAG	2 cut(s)	411, 1038
BisI	GCNGC	6 cut(s)	17, 36, 288, 704, 986, 1032
BlsI	GCNGC	6 cut(s)	18, 37, 289, 705, 987, 1033
BmcAI	AGTACT	1 cut(s)	1044
Bme1390I	CCNGG	3 cut(s)	215, 441, 618
BmiI	GGNNCC	3 cut(s)	418, 625, 780
BmrFI	CCNGG	3 cut(s)	215, 441, 618
BmrI	ACTGGG	1 cut(s)	303
BmsI	GCATC	3 cut(s)	634, 690, 997
BmuI	ACTGGG	1 cut(s)	303
BpmI	CTGGAG	2 cut(s)	41, 600
Bpu14I	TTCGAA	1 cut(s)	338
BpuEI	CTTGAG	1 cut(s)	503
BsaJI	CCNNGG	5 cut(s)	78, 208, 774, 924, 1061
BsaXI	ACNNNNNCTCC	2 cut(s)	408, 438
Bsc4I	CCNNNNNNNGG	3 cut(s)	214, 313, 360
Bse1I	ACTGG	3 cut(s)	288, 309, 580
Bse3DI	GCAATG	1 cut(s)	411
BseBI	CCWGG	3 cut(s)	215, 441, 618
BseDI	CCNNGG	5 cut(s)	78, 208, 774, 924, 1061
BseGI	GGATG	3 cut(s)	325, 534, 1085
BseLI	CCNNNNNNNGG	3 cut(s)	214, 313, 360
BseMI	GCAATG	1 cut(s)	411
BseMII	CTCAG	1 cut(s)	741
BseNI	ACTGG	3 cut(s)	288, 309, 580
BseXI	GCAGC	5 cut(s)	3, 22, 274, 715, 1043
BsgI	GTGCAG	2 cut(s)	614, 1031
BshFI	GGCC	5 cut(s)	213, 303, 595, 900, 959
BshNI	GGYRCC	1 cut(s)	778
BsiSI	CCGG	1 cut(s)	956
BslI	CCNNNNNNNGG	3 cut(s)	214, 313, 360
BsmAI	GTCTC	2 cut(s)	17, 793
BsmBI	CGTCTC	1 cut(s)	793
BsmI	GAATGC	1 cut(s)	647
BsnI	GGCC	5 cut(s)	213, 303, 595, 900, 959
Bsp119I	TTCGAA	1 cut(s)	338
Bsp143I	GATC	5 cut(s)	3, 272, 459, 623, 970
Bsp19I	CCATGG	1 cut(s)	1061
BspACI	CCGC	3 cut(s)	985, 999, 1009
BspANI	GGCC	5 cut(s)	213, 303, 595, 900, 959
BspCNI	CTCAG	1 cut(s)	742
BspLI	GGNNCC	3 cut(s)	418, 625, 780
BspMAI	CTGCAG	2 cut(s)	415, 1042
BspPI	GGATC	3 cut(s)	618, 631, 965
BspQI	GCTCTTC	1 cut(s)	45
BspT104I	TTCGAA	1 cut(s)	338
BspT107I	GGYRCC	1 cut(s)	778
BsrBI	CCGCTC	1 cut(s)	985
BsrDI	GCAATG	1 cut(s)	411
BsrI	ACTGG	3 cut(s)	288, 309, 580
BssECI	CCNNGG	5 cut(s)	78, 208, 774, 924, 1061
BssMI	GATC	5 cut(s)	3, 272, 459, 623, 970
BssT1I	CCWWGG	3 cut(s)	78, 774, 1061
Bst2UI	CCWGG	3 cut(s)	215, 441, 618
Bst4CI	ACNGT	4 cut(s)	70, 171, 532, 688
Bst6I	CTCTTC	1 cut(s)	45
BstAPI	GCANNNNNTGC	3 cut(s)	410, 653, 1037
BstBI	TTCGAA	1 cut(s)	338
BstC8I	GCNNGC	3 cut(s)	411, 603, 708
BstDEI	CTNAG	1 cut(s)	750
BstDSI	CCRYGG	2 cut(s)	924, 1061
BstF5I	GGATG	3 cut(s)	325, 534, 1085
BstHHI	GCGC	1 cut(s)	953
BstKTI	GATC	5 cut(s)	6, 275, 462, 626, 973
BstMAI	GTCTC	2 cut(s)	17, 793
BstMBI	GATC	5 cut(s)	3, 272, 459, 623, 970
BstMWI	GCNNNNNNNGC	5 cut(s)	410, 653, 674, 712, 1037
BstNI	CCWGG	3 cut(s)	215, 441, 618
BstNSI	RCATGY	3 cut(s)	236, 560, 893
BstSCI	CCNGG	3 cut(s)	213, 439, 616
BstSFI	CTRYAG	2 cut(s)	411, 1038
BstV1I	GCAGC	5 cut(s)	3, 22, 274, 715, 1043
BstX2I	RGATCY	2 cut(s)	623, 970
BstYI	RGATCY	2 cut(s)	623, 970
BsuRI	GGCC	5 cut(s)	213, 303, 595, 900, 959
BtgI	CCRYGG	2 cut(s)	924, 1061
BtsCI	GGATG	3 cut(s)	325, 534, 1085
BtsIMutI	CAGTG	2 cut(s)	573, 658
Cac8I	GCNNGC	3 cut(s)	411, 603, 708
CaiI	CAGNNNCTG	1 cut(s)	1037
CfoI	GCGC	1 cut(s)	953
Csp6I	GTAC	5 cut(s)	121, 149, 779, 849, 1043
CviQI	GTAC	5 cut(s)	121, 149, 779, 849, 1043
DdeI	CTNAG	1 cut(s)	750
DpnI	GATC	5 cut(s)	5, 274, 461, 625, 972
DpnII	GATC	5 cut(s)	3, 272, 459, 623, 970
EaeI	YGGCCR	1 cut(s)	957
Eam1104I	CTCTTC	1 cut(s)	45
EarI	CTCTTC	1 cut(s)	45
Eco130I	CCWWGG	3 cut(s)	78, 774, 1061
Eco147I	AGGCCT	1 cut(s)	213
EcoRI	GAATTC	1 cut(s)	334
EcoRII	CCWGG	3 cut(s)	213, 439, 616
EcoT14I	CCWWGG	3 cut(s)	78, 774, 1061
EcoT22I	ATGCAT	1 cut(s)	649
ErhI	CCWWGG	3 cut(s)	78, 774, 1061
Esp3I	CGTCTC	1 cut(s)	793
FauI	CCCGC	2 cut(s)	992, 1016
FbaI	TGATCA	1 cut(s)	3
Fnu4HI	GCNGC	6 cut(s)	17, 36, 288, 704, 986, 1032
FokI	GGATG	3 cut(s)	332, 521, 1092
Fsp4HI	GCNGC	6 cut(s)	17, 36, 288, 704, 986, 1032
FspBI	CTAG	2 cut(s)	117, 863
GlaI	GCGC	1 cut(s)	952
GluI	GCNGC	6 cut(s)	17, 36, 288, 704, 986, 1032
GsuI	CTGGAG	2 cut(s)	41, 600
HaeIII	GGCC	5 cut(s)	213, 303, 595, 900, 959
HapII	CCGG	1 cut(s)	956
HhaI	GCGC	1 cut(s)	953
Hin6I	GCGC	1 cut(s)	951
HinP1I	GCGC	1 cut(s)	951
HinfI	GANTC	6 cut(s)	74, 204, 450, 579, 613, 812
HpaII	CCGG	1 cut(s)	956
HphI	GGTGA	3 cut(s)	206, 342, 454
Hpy166II	GTNNAC	2 cut(s)	151, 245
Hpy188I	TCNGA	6 cut(s)	8, 209, 392, 855, 905, 941
Hpy188III	TCNNGA	1 cut(s)	681
Hpy8I	GTNNAC	2 cut(s)	151, 245
Hpy99I	CGWCG	1 cut(s)	175
HpyAV	CCTTC	3 cut(s)	334, 365, 387
HpyCH4III	ACNGT	4 cut(s)	70, 171, 532, 688
HpyF10VI	GCNNNNNNNGC	5 cut(s)	410, 653, 674, 712, 1037
HpyF3I	CTNAG	1 cut(s)	750
HspAI	GCGC	1 cut(s)	951
KpnI	GGTACC	1 cut(s)	782
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	5 cut(s)	3, 272, 459, 623, 970
LguI	GCTCTTC	1 cut(s)	45
LmnI	GCTCC	2 cut(s)	416, 958
Lsp1109I	GCAGC	5 cut(s)	3, 22, 274, 715, 1043
LweI	GCATC	3 cut(s)	634, 690, 997
MaeI	CTAG	2 cut(s)	117, 863
MaeIII	GTNAC	3 cut(s)	526, 541, 571
MalI	GATC	5 cut(s)	5, 274, 461, 625, 972
MbiI	CCGCTC	1 cut(s)	985
MboI	GATC	5 cut(s)	3, 272, 459, 623, 970
MboII	GAAGA	7 cut(s)	32, 269, 272, 376, 395, 472, 574
MflI	RGATCY	2 cut(s)	623, 970
MluCI	AATT	3 cut(s)	221, 334, 964
MlyI	GAGTC	2 cut(s)	198, 607
MmeI	TCCRAC	1 cut(s)	858
MnlI	CCTC	8 cut(s)	25, 203, 310, 614, 803, 877, 911, 989
Mph1103I	ATGCAT	1 cut(s)	649
MroXI	GAANNNNTTC	1 cut(s)	472
MseI	TTAA	3 cut(s)	101, 137, 1102
MslI	CAYNNNNRTG	1 cut(s)	894
MspI	CCGG	1 cut(s)	956
MspR9I	CCNGG	3 cut(s)	215, 441, 618
Mva1269I	GAATGC	1 cut(s)	647
MvaI	CCWGG	3 cut(s)	215, 441, 618
MwoI	GCNNNNNNNGC	5 cut(s)	410, 653, 674, 712, 1037
NcoI	CCATGG	1 cut(s)	1061
NdeII	GATC	5 cut(s)	3, 272, 459, 623, 970
NlaIV	GGNNCC	3 cut(s)	418, 625, 780
NmuCI	GTSAC	2 cut(s)	541, 571
NsiI	ATGCAT	1 cut(s)	649
NspI	RCATGY	3 cut(s)	236, 560, 893
NspV	TTCGAA	1 cut(s)	338
PceI	AGGCCT	1 cut(s)	213
PciI	ACATGT	1 cut(s)	232
PciSI	GCTCTTC	1 cut(s)	45
PctI	GAATGC	1 cut(s)	647
PdmI	GAANNNNTTC	1 cut(s)	472
PfeI	GAWTC	4 cut(s)	74, 450, 579, 812
PfoI	TCCNGGA	2 cut(s)	439, 616
PkrI	GCNGC	6 cut(s)	18, 37, 289, 705, 987, 1033
PleI	GAGTC	2 cut(s)	198, 607
PpsI	GAGTC	2 cut(s)	198, 607
PscI	ACATGT	1 cut(s)	232
Psp6I	CCWGG	3 cut(s)	213, 439, 616
PspGI	CCWGG	3 cut(s)	213, 439, 616
PspN4I	GGNNCC	3 cut(s)	418, 625, 780
PstI	CTGCAG	2 cut(s)	415, 1042
PstNI	CAGNNNCTG	1 cut(s)	1037
PsuI	RGATCY	2 cut(s)	623, 970
RsaI	GTAC	5 cut(s)	122, 150, 780, 850, 1044
RsaNI	GTAC	5 cut(s)	121, 149, 779, 849, 1043
RseI	CAYNNNNRTG	1 cut(s)	894
SapI	GCTCTTC	1 cut(s)	45
SaqAI	TTAA	3 cut(s)	101, 137, 1102
SatI	GCNGC	6 cut(s)	17, 36, 288, 704, 986, 1032
Sau3AI	GATC	5 cut(s)	3, 272, 459, 623, 970
SbfI	CCTGCAGG	1 cut(s)	415
ScaI	AGTACT	1 cut(s)	1044
SchI	GAGTC	2 cut(s)	198, 607
ScrFI	CCNGG	3 cut(s)	215, 441, 618
SdaI	CCTGCAGG	1 cut(s)	415
SfaNI	GCATC	3 cut(s)	634, 690, 997
SfcI	CTRYAG	2 cut(s)	411, 1038
SfuI	TTCGAA	1 cut(s)	338
SmiMI	CAYNNNNRTG	1 cut(s)	894
SmlI	CTYRAG	1 cut(s)	518
SmoI	CTYRAG	1 cut(s)	518
Sse8387I	CCTGCAGG	1 cut(s)	415
Sse9I	AATT	3 cut(s)	221, 334, 964
SseBI	AGGCCT	1 cut(s)	213
SsiI	CCGC	3 cut(s)	985, 999, 1009
SspMI	CTAG	2 cut(s)	117, 863
StuI	AGGCCT	1 cut(s)	213
StyD4I	CCNGG	3 cut(s)	213, 439, 616
StyI	CCWWGG	3 cut(s)	78, 774, 1061
TaaI	ACNGT	4 cut(s)	70, 171, 532, 688
TaqI	TCGA	1 cut(s)	338
TasI	AATT	3 cut(s)	221, 334, 964
TatI	WGTACW	2 cut(s)	848, 1042
TauI	GCSGC	1 cut(s)	988
TfiI	GAWTC	4 cut(s)	74, 450, 579, 812
Tru1I	TTAA	3 cut(s)	101, 137, 1102
Tru9I	TTAA	3 cut(s)	101, 137, 1102
TscAI	CASTG	2 cut(s)	580, 658
TseFI	GTSAC	2 cut(s)	541, 571
TseI	GCWGC	5 cut(s)	16, 35, 287, 703, 1031
Tsp45I	GTSAC	2 cut(s)	541, 571
TspDTI	ATGAA	3 cut(s)	270, 372, 783
TspGWI	ACGGA	2 cut(s)	941, 963
TspRI	CASTG	2 cut(s)	580, 658
XapI	RAATTY	2 cut(s)	334, 964
XceI	RCATGY	3 cut(s)	236, 560, 893
XmnI	GAANNNNTTC	1 cut(s)	472
XspI	CTAG	2 cut(s)	117, 863
ZrmI	AGTACT	1 cut(s)	1044
Zsp2I	ATGCAT	1 cut(s)	649

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