Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0005140

Physical Location & Seq

Genomic Coordinates Reverse (-)

77902269 .. 77904760

Gene Structure 2492 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG550600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGCATGGTTTGGAAAGTGGGATCATGCTTTTTGCAGCTAGATACAATCAAAAAAGCTTCGAGATTCCAGTACACTTCCATTATGTAGCACCATCATTCTGGGCTTGGAAAGGGGGTGAAGCAAGACTCAGAGGCTTAGCTGGATTTGTGGATCATATTCTGTGTATACTTCCGAATGAAGAAGAAGTTTGCAGATCAAATGGATTGGTTGCAACCTTTGTTGGCCACCCTATTCTAGAGGATGTGTGGGAGTTGAATTTGGATACTTTACCACATGAATGGAAAATAGAAGGAAACTCAGAAATTTTCAGAAGAAATCATGCAATACCTGCAGGAGCCCCAATCATTTCCTTGCTTCCTGGAAGCAGATTACAGGAGGTCACCAGAATGCTTTCTCTCTTTGCAAATACCATCGAACTATTAAAAGTCTCCTTTCCTGAGTTGGTACCAGTGATCCATGTCGCTACAAATCAGCATGTGAAGGACTATGTCACTAGATTTACCAACAAGTGGCCTGTGCCTGCTGTATTGATTCCAGGAGGATCTCTGCACCAGAAATATGATGCATTCAGCGCAAGTAGTGTTGCATTATGTGCTTCTGGAACAGTTGCTTTGGAGTTGCAGCTTGCACGGCTACCGTGTGTAGTTGCTTATCGAGCTCATTTCCTAACTGAGTGGATTATTCGCTATAAAGCCAAGATATCTTACATCTCCCTCCCAAATATCTTGTTGGATTCAGCTATCATCCCTGAAGCACTGTTTCAAGTATGCACTCCAGCAAAGCTATCCTCATTAACATCGAAATTGATACATGACGATGGCCTCCGAGAAAAACAAATTGTTGCTGCTGAAAAGGTTACCCGACTTCTGTGTGCTTCACCTGGAAACTTAGATAACTTGGAAGAGCCGCATCAAAGATGGAGGTTTCCCCATTACACACCGAGTATGATAGCAGCATCTGCAATACTGTGCCATCTGAAGCCATATTGA

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

329

Amino Acids

36.79

Weight (kDa)

7.25

Isoelectric Point (pI)

46.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LpxB	PF02684	26 - 290	3.1e-48	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)

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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)
Acc36I	ACCTGC	1 cut(s)	337
Acc65I	GGTACC	1 cut(s)	445
AccB1I	GGYRCC	1 cut(s)	445
AccB7I	CCANNNNNTGG	1 cut(s)	510
AccI	GTMKAC	1 cut(s)	166
AciI	CCGC	1 cut(s)	908
AclWI	GGATC	4 cut(s)	29, 159, 448, 550
AcoI	YGGCCR	1 cut(s)	223
AcsI	RAATTY	2 cut(s)	256, 303
AcuI	CTGAAG	1 cut(s)	771
AfaI	GTAC	2 cut(s)	72, 447
AfiI	CCNNNNNNNGG	1 cut(s)	510
AgsI	TTSAA	2 cut(s)	256, 764
AjnI	CCWGG	3 cut(s)	358, 535, 880
AluBI	AGCT	7 cut(s)	38, 57, 140, 625, 659, 740, 784
AluI	AGCT	7 cut(s)	38, 57, 140, 625, 659, 740, 784
Alw21I	GWGCWC	1 cut(s)	661
Alw26I	GTCTC	1 cut(s)	433
AlwI	GGATC	4 cut(s)	29, 159, 448, 550
AlwNI	CAGNNNCTG	1 cut(s)	959
AoxI	GGCC	3 cut(s)	223, 512, 820
ApeKI	GCWGC	4 cut(s)	35, 622, 845, 953
ApoI	RAATTY	2 cut(s)	256, 303
Asp700I	GAANNNNTTC	1 cut(s)	391
Asp718I	GGTACC	1 cut(s)	445
AspLEI	GCGC	1 cut(s)	575
AsuHPI	GGTGA	3 cut(s)	128, 373, 870
BalI	TGGCCA	1 cut(s)	225
BanI	GGYRCC	1 cut(s)	445
BanII	GRGCYC	2 cut(s)	340, 661
Bbv12I	GWGCWC	1 cut(s)	661
BbvI	GCAGC	4 cut(s)	47, 634, 832, 965
BccI	CCATC	5 cut(s)	100, 419, 812, 912, 981
BceAI	ACGGC	1 cut(s)	647
BciT130I	CCWGG	3 cut(s)	360, 537, 882
BciVI	GTATCC	1 cut(s)	256
BcoDI	GTCTC	1 cut(s)	433
BfaI	CTAG	3 cut(s)	39, 236, 495
BfmI	CTRYAG	1 cut(s)	330
BfuAI	ACCTGC	1 cut(s)	337
BfuI	GTATCC	1 cut(s)	256
BisI	GCNGC	5 cut(s)	36, 623, 846, 908, 954
BlpI	GCTNAGC	1 cut(s)	136
BlsI	GCNGC	5 cut(s)	37, 624, 847, 909, 955
Bme1390I	CCNGG	3 cut(s)	360, 537, 882
BmiI	GGNNCC	2 cut(s)	337, 447
BmrFI	CCNGG	3 cut(s)	360, 537, 882
BmsI	GCATC	3 cut(s)	553, 919, 965
BpmI	CTGGAG	1 cut(s)	759
Bpu1102I	GCTNAGC	1 cut(s)	136
Bsc4I	CCNNNNNNNGG	1 cut(s)	510
Bse1I	ACTGG	2 cut(s)	68, 449
BseBI	CCWGG	3 cut(s)	360, 537, 882
BseGI	GGATG	2 cut(s)	247, 744
BseLI	CCNNNNNNNGG	1 cut(s)	510
BseMII	CTCAG	4 cut(s)	142, 312, 429, 663
BseNI	ACTGG	2 cut(s)	68, 449
BseXI	GCAGC	4 cut(s)	47, 634, 832, 965
BsgI	GTGCAG	1 cut(s)	533
BshFI	GGCC	3 cut(s)	225, 514, 822
BshNI	GGYRCC	1 cut(s)	445
BsiHKAI	GWGCWC	1 cut(s)	661
BslI	CCNNNNNNNGG	1 cut(s)	510
BsmAI	GTCTC	1 cut(s)	433
BsmI	GAATGC	2 cut(s)	393, 566
BsnI	GGCC	3 cut(s)	225, 514, 822
Bsp1286I	GDGCHC	2 cut(s)	340, 661
Bsp143I	GATC	5 cut(s)	21, 151, 194, 453, 542
Bsp1720I	GCTNAGC	1 cut(s)	136
BspACI	CCGC	1 cut(s)	908
BspANI	GGCC	3 cut(s)	225, 514, 822
BspCNI	CTCAG	4 cut(s)	141, 311, 430, 664
BspLI	GGNNCC	2 cut(s)	337, 447
BspMAI	CTGCAG	1 cut(s)	334
BspMI	ACCTGC	1 cut(s)	337
BspPI	GGATC	4 cut(s)	29, 159, 448, 550
BspQI	GCTCTTC	1 cut(s)	897
BspT107I	GGYRCC	1 cut(s)	445
BsrI	ACTGG	2 cut(s)	68, 449
BssMI	GATC	5 cut(s)	21, 151, 194, 453, 542
BssNAI	GTATAC	1 cut(s)	167
Bst1107I	GTATAC	1 cut(s)	167
Bst2UI	CCWGG	3 cut(s)	360, 537, 882
Bst4CI	ACNGT	4 cut(s)	607, 639, 759, 969
Bst6I	CTCTTC	1 cut(s)	897
BstAPI	GCANNNNNTGC	3 cut(s)	329, 593, 959
BstC8I	GCNNGC	2 cut(s)	522, 627
BstDEI	CTNAG	6 cut(s)	128, 136, 298, 438, 672, 889
BstEII	GGTNACC	2 cut(s)	379, 856
BstF5I	GGATG	2 cut(s)	247, 744
BstHHI	GCGC	1 cut(s)	575
BstKTI	GATC	5 cut(s)	24, 154, 197, 456, 545
BstMAI	GTCTC	1 cut(s)	433
BstMBI	GATC	5 cut(s)	21, 151, 194, 453, 542
BstMWI	GCNNNNNNNGC	6 cut(s)	329, 572, 593, 631, 656, 959
BstNI	CCWGG	3 cut(s)	360, 537, 882
BstNSI	RCATGY	1 cut(s)	479
BstPI	GGTNACC	2 cut(s)	379, 856
BstSCI	CCNGG	3 cut(s)	358, 535, 880
BstSFI	CTRYAG	1 cut(s)	330
BstV1I	GCAGC	4 cut(s)	47, 634, 832, 965
BstX2I	RGATCY	1 cut(s)	542
BstXI	CCANNNNNNTGG	2 cut(s)	99, 279
BstYI	RGATCY	1 cut(s)	542
BstZ17I	GTATAC	1 cut(s)	167
BsuI	GTATCC	1 cut(s)	256
BsuRI	GGCC	3 cut(s)	225, 514, 822
BtsCI	GGATG	2 cut(s)	247, 744
BtsIMutI	CAGTG	2 cut(s)	456, 755
BveI	ACCTGC	1 cut(s)	337
Cac8I	GCNNGC	2 cut(s)	522, 627
CaiI	CAGNNNCTG	1 cut(s)	959
CfoI	GCGC	1 cut(s)	575
Csp6I	GTAC	2 cut(s)	71, 446
CviAII	CATG	7 cut(s)	5, 25, 275, 320, 458, 476, 812
CviQI	GTAC	2 cut(s)	71, 446
DdeI	CTNAG	6 cut(s)	128, 136, 298, 438, 672, 889
DpnI	GATC	5 cut(s)	23, 153, 196, 455, 544
DpnII	GATC	5 cut(s)	21, 151, 194, 453, 542
EaeI	YGGCCR	1 cut(s)	223
Eam1104I	CTCTTC	1 cut(s)	897
EarI	CTCTTC	1 cut(s)	897
Ecl136II	GAGCTC	1 cut(s)	659
Eco24I	GRGCYC	2 cut(s)	340, 661
Eco32I	GATATC	1 cut(s)	702
Eco53kI	GAGCTC	1 cut(s)	659
Eco57I	CTGAAG	1 cut(s)	771
Eco91I	GGTNACC	2 cut(s)	379, 856
EcoICRI	GAGCTC	1 cut(s)	659
EcoO65I	GGTNACC	2 cut(s)	379, 856
EcoRII	CCWGG	3 cut(s)	358, 535, 880
EcoRV	GATATC	1 cut(s)	702
EcoT22I	ATGCAT	2 cut(s)	6, 568
EcoT38I	GRGCYC	2 cut(s)	340, 661
FaeI	CATG	7 cut(s)	8, 28, 278, 323, 461, 479, 815
FatI	CATG	7 cut(s)	4, 24, 274, 319, 457, 475, 811
FblI	GTMKAC	1 cut(s)	166
Fnu4HI	GCNGC	5 cut(s)	36, 623, 846, 908, 954
FokI	GGATG	2 cut(s)	254, 731
FriOI	GRGCYC	2 cut(s)	340, 661
Fsp4HI	GCNGC	5 cut(s)	36, 623, 846, 908, 954
FspBI	CTAG	3 cut(s)	39, 236, 495
GlaI	GCGC	1 cut(s)	574
GluI	GCNGC	5 cut(s)	36, 623, 846, 908, 954
GsuI	CTGGAG	1 cut(s)	759
HaeIII	GGCC	3 cut(s)	225, 514, 822
HhaI	GCGC	1 cut(s)	575
Hin1II	CATG	7 cut(s)	8, 28, 278, 323, 461, 479, 815
Hin6I	GCGC	1 cut(s)	573
HinP1I	GCGC	1 cut(s)	573
HindIII	AAGCTT	1 cut(s)	55
HinfI	GANTC	4 cut(s)	64, 126, 532, 734
HphI	GGTGA	3 cut(s)	128, 373, 870
Hpy166II	GTNNAC	2 cut(s)	73, 167
Hpy188I	TCNGA	6 cut(s)	131, 174, 301, 311, 827, 978
Hpy188III	TCNNGA	4 cut(s)	61, 236, 437, 600
Hpy8I	GTNNAC	2 cut(s)	73, 167
HpyAV	CCTTC	2 cut(s)	284, 475
HpyCH4III	ACNGT	4 cut(s)	607, 639, 759, 969
HpyF10VI	GCNNNNNNNGC	6 cut(s)	329, 572, 593, 631, 656, 959
HpyF3I	CTNAG	6 cut(s)	128, 136, 298, 438, 672, 889
Hsp92II	CATG	7 cut(s)	8, 28, 278, 323, 461, 479, 815
HspAI	GCGC	1 cut(s)	573
KpnI	GGTACC	1 cut(s)	449
Kzo9I	GATC	5 cut(s)	21, 151, 194, 453, 542
LguI	GCTCTTC	1 cut(s)	897
LmnI	GCTCC	1 cut(s)	335
Lsp1109I	GCAGC	4 cut(s)	47, 634, 832, 965
LweI	GCATC	3 cut(s)	553, 919, 965
MaeI	CTAG	3 cut(s)	39, 236, 495
MaeIII	GTNAC	3 cut(s)	379, 490, 856
MalI	GATC	5 cut(s)	23, 153, 196, 455, 544
MboI	GATC	5 cut(s)	21, 151, 194, 453, 542
MboII	GAAGA	4 cut(s)	191, 194, 324, 914
MflI	RGATCY	1 cut(s)	542
MhlI	GDGCHC	2 cut(s)	340, 661
MlsI	TGGCCA	1 cut(s)	225
MluCI	AATT	4 cut(s)	256, 303, 803, 837
MluNI	TGGCCA	1 cut(s)	225
MlyI	GAGTC	1 cut(s)	120
MmeI	TCCRAC	1 cut(s)	711
MnlI	CCTC	8 cut(s)	125, 232, 370, 533, 725, 799, 833, 915
Mox20I	TGGCCA	1 cut(s)	225
Mph1103I	ATGCAT	2 cut(s)	6, 568
MroXI	GAANNNNTTC	1 cut(s)	391
MscI	TGGCCA	1 cut(s)	225
MseI	TTAA	2 cut(s)	422, 794
MslI	CAYNNNNRTG	3 cut(s)	277, 386, 816
Msp20I	TGGCCA	1 cut(s)	225
MspR9I	CCNGG	3 cut(s)	360, 537, 882
Mva1269I	GAATGC	2 cut(s)	393, 566
MvaI	CCWGG	3 cut(s)	360, 537, 882
MwoI	GCNNNNNNNGC	6 cut(s)	329, 572, 593, 631, 656, 959
NdeII	GATC	5 cut(s)	21, 151, 194, 453, 542
NlaIII	CATG	7 cut(s)	8, 28, 278, 323, 461, 479, 815
NlaIV	GGNNCC	2 cut(s)	337, 447
NmuCI	GTSAC	2 cut(s)	379, 490
NsiI	ATGCAT	2 cut(s)	6, 568
NspI	RCATGY	1 cut(s)	479
PciSI	GCTCTTC	1 cut(s)	897
PctI	GAATGC	2 cut(s)	393, 566
PdmI	GAANNNNTTC	1 cut(s)	391
PfeI	GAWTC	3 cut(s)	64, 532, 734
PflFI	GACNNNGTC	1 cut(s)	488
PflMI	CCANNNNNTGG	1 cut(s)	510
PfoI	TCCNGGA	2 cut(s)	358, 535
PkrI	GCNGC	5 cut(s)	37, 624, 847, 909, 955
PleI	GAGTC	1 cut(s)	120
PpsI	GAGTC	1 cut(s)	120
Psp124BI	GAGCTC	1 cut(s)	661
Psp6I	CCWGG	3 cut(s)	358, 535, 880
PspEI	GGTNACC	2 cut(s)	379, 856
PspGI	CCWGG	3 cut(s)	358, 535, 880
PspN4I	GGNNCC	2 cut(s)	337, 447
PstI	CTGCAG	1 cut(s)	334
PstNI	CAGNNNCTG	1 cut(s)	959
PsuI	RGATCY	1 cut(s)	542
PsyI	GACNNNGTC	1 cut(s)	488
RsaI	GTAC	2 cut(s)	72, 447
RsaNI	GTAC	2 cut(s)	71, 446
RseI	CAYNNNNRTG	3 cut(s)	277, 386, 816
SacI	GAGCTC	1 cut(s)	661
SapI	GCTCTTC	1 cut(s)	897
SaqAI	TTAA	2 cut(s)	422, 794
SatI	GCNGC	5 cut(s)	36, 623, 846, 908, 954
Sau3AI	GATC	5 cut(s)	21, 151, 194, 453, 542
SbfI	CCTGCAGG	1 cut(s)	334
SchI	GAGTC	1 cut(s)	120
ScrFI	CCNGG	3 cut(s)	360, 537, 882
SdaI	CCTGCAGG	1 cut(s)	334
SduI	GDGCHC	2 cut(s)	340, 661
SfaNI	GCATC	3 cut(s)	553, 919, 965
SfcI	CTRYAG	1 cut(s)	330
SmiMI	CAYNNNNRTG	3 cut(s)	277, 386, 816
Sse8387I	CCTGCAGG	1 cut(s)	334
Sse9I	AATT	4 cut(s)	256, 303, 803, 837
SsiI	CCGC	1 cut(s)	908
SspMI	CTAG	3 cut(s)	39, 236, 495
SstI	GAGCTC	1 cut(s)	661
StyD4I	CCNGG	3 cut(s)	358, 535, 880
TaaI	ACNGT	4 cut(s)	607, 639, 759, 969
TaqI	TCGA	4 cut(s)	60, 414, 655, 800
TasI	AATT	4 cut(s)	256, 303, 803, 837
TatI	WGTACW	1 cut(s)	70
TauI	GCSGC	1 cut(s)	910
TfiI	GAWTC	3 cut(s)	64, 532, 734
Tru1I	TTAA	2 cut(s)	422, 794
Tru9I	TTAA	2 cut(s)	422, 794
TscAI	CASTG	2 cut(s)	456, 762
TseFI	GTSAC	2 cut(s)	379, 490
TseI	GCWGC	4 cut(s)	35, 622, 845, 953
Tsp45I	GTSAC	2 cut(s)	379, 490
TspDTI	ATGAA	2 cut(s)	192, 291
TspRI	CASTG	2 cut(s)	456, 762
Tth111I	GACNNNGTC	1 cut(s)	488
Van91I	CCANNNNNTGG	1 cut(s)	510
XapI	RAATTY	2 cut(s)	256, 303
XbaI	TCTAGA	1 cut(s)	235
XceI	RCATGY	1 cut(s)	479
XmiI	GTMKAC	1 cut(s)	166
XmnI	GAANNNNTTC	1 cut(s)	391
XspI	CTAG	3 cut(s)	39, 236, 495
Zsp2I	ATGCAT	2 cut(s)	6, 568

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