Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0009271

Physical Location & Seq

Genomic Coordinates Reverse (-)

863440 .. 866291

Gene Structure 2852 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG013900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1446 bp

ATGGCACTGGCTGCGCATTCAATCTTGCTGTCCCATAATGATAGTATTGGCAGTACATGTATGAGGTTGGGATTTACAAGTGAGGAAAGGTTTCAGAAGAGAAGGATGGTTGATTTTCAAGTGGTTGTGAAATTTTGTCCCAATAGCAGAAAATCAAGATACTCCCAATTCATTAGTTCTGATAGAAACTCTTCTGGTTTGGGGTCAAAATGGTCTTCTCTGCTCTCTAGCAGGACAGAGAAGGCTTTTTTGAAAAGTGGCACAAGAACTAGTGAAACTGAGACTAAACAGGTGATTAATGTTATACTTGAAGAAATACTCAGCTTCATTAAAGAGTCGAGTCAGTTTCACTTCATGAAAGTAGCTGGTTTACTGGTATGCACTCTCATGGTGATTCCATCAGCCAATGCTGTCGATGCTCTCAAAACTTGTTCTTGCTTACTTAAGGAATGCAGGGTAGAACTTGCAAAGTGCATTTCAAACCCATCCTGTGCTGCCAATGTTGCTTGTCTGCAAACTTGTAACAATCGACCTGATGAGACGGAATGTCAGATTAAATGCGGGGACCTGTTTGAGAACAGTGTCGTTGATGAATTTAATGAATGTGCAGTGTCACGAAAGAAGTGTGTACCTATGAAATCCGATGTGGGAGAATTTCCTATCCCAGATCCTTCTGTTCTTGTTCAAAGCTTTGATATGGAAAAGTTTAATGGGAAATGGTTCATTACTAGTGGCTTGAATCCTACCTTTGATGCTTTTGATTGCCAAGTGCACGAATTCCATACAGAGTCTGGCAGACTTGTAGGAAATTTGTCTTGGAGAATAAGAACCCCTGATGGCGGTTTTTTTACTCGAACAGCTATTCAGAAATTCGTGCAAGATCCAAACCAGCCTGGCATACTATACAATCATGACAATGATTATCTTCACTATCAAGATGACTGGTACATTCTATCTTCAAAGATAGAGAATAAACCGGAAGACTATATATTTGTATACTACCGTGGCAGGAATGATGCGTGGGATGGATACGGTGGTGCTGTGATATATACAAGGAGTTCAGTTTTGCCACAAAGCACTGTTCCTGATCTTGAAAAAGCAGCTAAGAGCGTGGGACGAGACTTCAGCAAGTTTATCAAAACAGATAATACTTGCGGGCCTGAACCTCCACTTGTAGAGAGGTTGGAGAAGACACTTGAGCAAGGGGAGAGGGTCATTATAGAGGAAGTTCAACAGATAGAAGGGGAAGTGGAGAAGGTTGAACAGACAGAGCAGTCATTGTTTCAAAAGTTAGCAGAAGGGTTTAATGAGATTAAACAAGATGAGGAGAACTTCTTGAGAGAGCTTTCCAAAGAAGAGATGGATATTTTGAGCGAGCTCAAAATGGAAGCAACCGAAGTAGAAAAGCTTTTCGGACGAACACTTCCTCTTCGGAAGCTTAGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006629 GO:0006631 GO:0006720 GO:0006721 GO:0006725 GO:0006778 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009266 GO:0009408 GO:0009507 GO:0009534 GO:0009536 GO:0009579 GO:0009628 GO:0009987 GO:0010028 GO:0015994 GO:0016108 GO:0016116 GO:0016122 GO:0016491 GO:0019752 GO:0019904 GO:0031976 GO:0031977 GO:0031984 GO:0032787 GO:0033013 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044255 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0046422 GO:0046483 GO:0050896 GO:0051186 GO:0055114 GO:0071704 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko00906 ko01100 ko01110 map00906 map01100 map01110

Pfam Domains

Protein Families

VDE

Protein Analysis

481

Amino Acids

54.65

Weight (kDa)

5.35

Isoelectric Point (pI)

48.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VDE	PF07137	144 - 383	2.1e-108	VDE lipocalin domain

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: OG0009271)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08550 AT1G08550 AT1G08550
fragaria_vesca	FvH4_6g01130 FvH4_6g01130
malus_domestica	MD12G1255200.v1.1
prunus_persica	Prupe.6G356100_v2.0.a1 Prupe.6G356100_v2.0.a1 Prupe.6G356100_v2.0.a1 Prupe.6G356100_v2.0.a1 Prupe.6G356100_v2.0.a1
pyrus_communis	pycom12g23390
rosa_chinensis	RchiOBHm_Chr3g0448661
rosa_laevigata	RLG00000025881
rosa_multiflora	Rmu_sc0003116.1_g000034
rosa_roxburghii	Rroxscaffold_6G00426930
rosa_rugosa	Rorug02G0615100
rosa_samantha	Rh3AG013900 Rh3BG013700 Rh3CG012800 Rh3DG014500
rosa_wichuraiana	Rw3G001030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1273
Acc16I	TGCGCA	1 cut(s)	15
AccI	GTMKAC	1 cut(s)	996
AciI	CCGC	3 cut(s)	561, 840, 1155
AclWI	GGATC	2 cut(s)	662, 875
AcsI	RAATTY	6 cut(s)	131, 593, 653, 776, 808, 869
AcuI	CTGAAG	1 cut(s)	1108
AfaI	GTAC	3 cut(s)	55, 630, 947
AfiI	CCNNNNNNNGG	1 cut(s)	839
AflII	CTTAAG	1 cut(s)	443
AflIII	ACRYGT	1 cut(s)	56
AhdI	GACNNNNNGTC	1 cut(s)	546
AhlI	ACTAGT	2 cut(s)	269, 728
AjnI	CCWGG	1 cut(s)	892
AjuI	GAANNNNNNNTTGG	2 cut(s)	799, 831
AluBI	AGCT	9 cut(s)	324, 365, 690, 860, 1103, 1345, 1378, 1408, 1438
AluI	AGCT	9 cut(s)	324, 365, 690, 860, 1103, 1345, 1378, 1408, 1438
Alw21I	GWGCWC	2 cut(s)	774, 1380
Alw26I	GTCTC	3 cut(s)	275, 533, 1113
Alw44I	GTGCAC	1 cut(s)	770
AlwI	GGATC	2 cut(s)	662, 875
AlwNI	CAGNNNCTG	1 cut(s)	791
AoxI	GGCC	1 cut(s)	1157
ApaLI	GTGCAC	1 cut(s)	770
ApeKI	GCWGC	3 cut(s)	11, 494, 1100
ApoI	RAATTY	6 cut(s)	131, 593, 653, 776, 808, 869
ArsI	GACNNNNNNTTYG	2 cut(s)	974, 1006
AseI	ATTAAT	1 cut(s)	297
Asp700I	GAANNNNTTC	3 cut(s)	90, 190, 719
AspLEI	GCGC	1 cut(s)	16
AspS9I	GGNCC	2 cut(s)	565, 1157
AsuHPI	GGTGA	2 cut(s)	304, 403
AvaII	GGWCC	1 cut(s)	565
BaeGI	GKGCMC	1 cut(s)	774
BaeI	ACNNNNGTAYC	2 cut(s)	1021, 1054
BanII	GRGCYC	1 cut(s)	1380
BbsI	GAAGAC	3 cut(s)	207, 987, 1196
Bbv12I	GWGCWC	2 cut(s)	774, 1380
BbvI	GCAGC	2 cut(s)	481, 1112
BccI	CCATC	6 cut(s)	100, 406, 493, 830, 1019, 1354
BciT130I	CCWGG	1 cut(s)	894
BciVI	GTATCC	1 cut(s)	1022
BcoDI	GTCTC	3 cut(s)	275, 533, 1113
BcuI	ACTAGT	2 cut(s)	269, 728
BfaI	CTAG	3 cut(s)	228, 270, 729
BfrI	CTTAAG	1 cut(s)	443
BfuI	GTATCC	1 cut(s)	1022
BisI	GCNGC	3 cut(s)	12, 495, 1101
BlsI	GCNGC	3 cut(s)	13, 496, 1102
Bme1390I	CCNGG	1 cut(s)	894
Bme18I	GGWCC	1 cut(s)	565
BmeRI	GACNNNNNGTC	1 cut(s)	546
BmgT120I	GGNCC	2 cut(s)	565, 1157
BmiI	GGNNCC	1 cut(s)	566
BmrFI	CCNGG	1 cut(s)	894
BmsI	GCATC	3 cut(s)	406, 742, 1006
BpiI	GAAGAC	3 cut(s)	207, 987, 1196
BpuEI	CTTGAG	2 cut(s)	1217, 1357
BsaJI	CCNNGG	1 cut(s)	1003
BsaWI	WCCGGW	1 cut(s)	976
Bsc4I	CCNNNNNNNGG	1 cut(s)	839
Bse1I	ACTGG	3 cut(s)	12, 378, 947
BseBI	CCWGG	1 cut(s)	894
BseDI	CCNNGG	1 cut(s)	1003
BseGI	GGATG	3 cut(s)	111, 485, 1030
BseLI	CCNNNNNNNGG	1 cut(s)	839
BseMII	CTCAG	2 cut(s)	270, 334
BseNI	ACTGG	3 cut(s)	12, 378, 947
BseRI	GAGGAG	1 cut(s)	1340
BseSI	GKGCMC	1 cut(s)	774
BseXI	GCAGC	2 cut(s)	481, 1112
BsgI	GTGCAG	1 cut(s)	627
BshFI	GGCC	1 cut(s)	1159
BsiHKAI	GWGCWC	2 cut(s)	774, 1380
BsiSI	CCGG	1 cut(s)	977
BslFI	GGGAC	4 cut(s)	16, 123, 578, 1128
BslI	CCNNNNNNNGG	1 cut(s)	839
BsmAI	GTCTC	3 cut(s)	275, 533, 1113
BsmBI	CGTCTC	1 cut(s)	533
BsmFI	GGGAC	4 cut(s)	16, 123, 578, 1128
BsmI	GAATGC	2 cut(s)	16, 455
BsnI	GGCC	1 cut(s)	1159
Bsp1286I	GDGCHC	2 cut(s)	774, 1380
Bsp143I	GATC	3 cut(s)	667, 880, 1087
BspACI	CCGC	3 cut(s)	561, 840, 1155
BspANI	GGCC	1 cut(s)	1159
BspCNI	CTCAG	2 cut(s)	271, 333
BspHI	TCATGA	2 cut(s)	354, 910
BspLI	GGNNCC	1 cut(s)	566
BspPI	GGATC	2 cut(s)	662, 875
BspTI	CTTAAG	1 cut(s)	443
BsrI	ACTGG	3 cut(s)	12, 378, 947
BssECI	CCNNGG	1 cut(s)	1003
BssMI	GATC	3 cut(s)	667, 880, 1087
BssNAI	GTATAC	1 cut(s)	997
Bst1107I	GTATAC	1 cut(s)	997
Bst2UI	CCWGG	1 cut(s)	894
Bst4CI	ACNGT	4 cut(s)	581, 1004, 1034, 1081
Bst6I	CTCTTC	4 cut(s)	92, 196, 1350, 1434
BstAFI	CTTAAG	1 cut(s)	443
BstAPI	GCANNNNNTGC	1 cut(s)	11
BstC8I	GCNNGC	2 cut(s)	1157, 1376
BstDEI	CTNAG	4 cut(s)	279, 320, 1104, 1439
BstDSI	CCRYGG	1 cut(s)	1003
BstF5I	GGATG	3 cut(s)	111, 485, 1030
BstHHI	GCGC	1 cut(s)	16
BstKTI	GATC	3 cut(s)	670, 883, 1090
BstMAI	GTCTC	3 cut(s)	275, 533, 1113
BstMBI	GATC	3 cut(s)	667, 880, 1087
BstMWI	GCNNNNNNNGC	3 cut(s)	11, 416, 503
BstNI	CCWGG	1 cut(s)	894
BstNSI	RCATGY	1 cut(s)	60
BstSCI	CCNGG	1 cut(s)	892
BstSLI	GKGCMC	1 cut(s)	774
BstV1I	GCAGC	2 cut(s)	481, 1112
BstV2I	GAAGAC	3 cut(s)	207, 987, 1196
BstX2I	RGATCY	2 cut(s)	667, 880
BstYI	RGATCY	2 cut(s)	667, 880
BstZ17I	GTATAC	1 cut(s)	997
BsuI	GTATCC	1 cut(s)	1022
BsuRI	GGCC	1 cut(s)	1159
BtgI	CCRYGG	1 cut(s)	1003
BtsCI	GGATG	3 cut(s)	111, 485, 1030
BtsI	GCAGTG	1 cut(s)	615
BtsIMutI	CAGTG	4 cut(s)	5, 586, 615, 1077
Cac8I	GCNNGC	2 cut(s)	1157, 1376
CaiI	CAGNNNCTG	1 cut(s)	791
CciI	TCATGA	2 cut(s)	354, 910
CfoI	GCGC	1 cut(s)	16
Cfr13I	GGNCC	2 cut(s)	565, 1157
Csp6I	GTAC	3 cut(s)	54, 629, 946
CviAII	CATG	4 cut(s)	57, 355, 388, 911
CviQI	GTAC	3 cut(s)	54, 629, 946
DdeI	CTNAG	4 cut(s)	279, 320, 1104, 1439
DpnI	GATC	3 cut(s)	669, 882, 1089
DpnII	GATC	3 cut(s)	667, 880, 1087
DrdI	GACNNNNNNGTC	1 cut(s)	1273
DriI	GACNNNNNGTC	1 cut(s)	546
DseDI	GACNNNNNNGTC	1 cut(s)	1273
Eam1104I	CTCTTC	4 cut(s)	92, 196, 1350, 1434
Eam1105I	GACNNNNNGTC	1 cut(s)	546
EarI	CTCTTC	4 cut(s)	92, 196, 1350, 1434
Ecl136II	GAGCTC	1 cut(s)	1378
Eco24I	GRGCYC	1 cut(s)	1380
Eco47I	GGWCC	1 cut(s)	565
Eco53kI	GAGCTC	1 cut(s)	1378
Eco57I	CTGAAG	1 cut(s)	1108
EcoICRI	GAGCTC	1 cut(s)	1378
EcoO109I	RGGNCCY	1 cut(s)	565
EcoRI	GAATTC	1 cut(s)	776
EcoRII	CCWGG	1 cut(s)	892
EcoT38I	GRGCYC	1 cut(s)	1380
Esp3I	CGTCTC	1 cut(s)	533
FaeI	CATG	4 cut(s)	60, 358, 391, 914
FaqI	GGGAC	4 cut(s)	16, 123, 578, 1128
FatI	CATG	4 cut(s)	56, 354, 387, 910
FauI	CCCGC	2 cut(s)	554, 1148
FblI	GTMKAC	1 cut(s)	996
Fnu4HI	GCNGC	3 cut(s)	12, 495, 1101
FokI	GGATG	3 cut(s)	118, 472, 1037
FriOI	GRGCYC	1 cut(s)	1380
Fsp4HI	GCNGC	3 cut(s)	12, 495, 1101
FspBI	CTAG	3 cut(s)	228, 270, 729
FspI	TGCGCA	1 cut(s)	15
GlaI	GCGC	1 cut(s)	15
GluI	GCNGC	3 cut(s)	12, 495, 1101
HaeIII	GGCC	1 cut(s)	1159
HapII	CCGG	1 cut(s)	977
HhaI	GCGC	1 cut(s)	16
Hin1II	CATG	4 cut(s)	60, 358, 391, 914
Hin6I	GCGC	1 cut(s)	14
HinP1I	GCGC	1 cut(s)	14
HindIII	AAGCTT	3 cut(s)	688, 1406, 1436
HinfI	GANTC	5 cut(s)	335, 340, 394, 739, 788
HpaII	CCGG	1 cut(s)	977
HphI	GGTGA	2 cut(s)	304, 403
Hpy166II	GTNNAC	4 cut(s)	371, 629, 772, 997
Hpy188I	TCNGA	7 cut(s)	96, 181, 552, 643, 867, 1415, 1434
Hpy188III	TCNNGA	8 cut(s)	156, 355, 615, 911, 935, 1085, 1091, 1336
Hpy8I	GTNNAC	4 cut(s)	371, 629, 772, 997
HpyAV	CCTTC	6 cut(s)	96, 235, 681, 1235, 1249, 1292
HpyCH4III	ACNGT	4 cut(s)	581, 1004, 1034, 1081
HpyCH4V	TGCA	8 cut(s)	381, 453, 467, 474, 514, 608, 772, 877
HpyF10VI	GCNNNNNNNGC	3 cut(s)	11, 416, 503
HpyF3I	CTNAG	4 cut(s)	279, 320, 1104, 1439
Hsp92II	CATG	4 cut(s)	60, 358, 391, 914
HspAI	GCGC	1 cut(s)	14
Kzo9I	GATC	3 cut(s)	667, 880, 1087
Lsp1109I	GCAGC	2 cut(s)	481, 1112
LweI	GCATC	3 cut(s)	406, 742, 1006
MaeI	CTAG	3 cut(s)	228, 270, 729
MaeIII	GTNAC	2 cut(s)	521, 612
MalI	GATC	3 cut(s)	669, 882, 1089
MboI	GATC	3 cut(s)	667, 880, 1087
MflI	RGATCY	2 cut(s)	667, 880
MhlI	GDGCHC	2 cut(s)	774, 1380
MluCI	AATT	7 cut(s)	131, 167, 593, 653, 776, 808, 869
MlyI	GAGTC	3 cut(s)	344, 349, 797
MmeI	TCCRAC	1 cut(s)	1164
MnlI	CCTC	8 cut(s)	57, 76, 1173, 1176, 1203, 1216, 1318, 1437
MroXI	GAANNNNTTC	3 cut(s)	90, 190, 719
MseI	TTAA	8 cut(s)	297, 330, 444, 555, 597, 708, 1305, 1314
MslI	CAYNNNNRTG	2 cut(s)	386, 915
MspCI	CTTAAG	1 cut(s)	443
MspI	CCGG	1 cut(s)	977
MspR9I	CCNGG	1 cut(s)	894
Mva1269I	GAATGC	2 cut(s)	16, 455
MvaI	CCWGG	1 cut(s)	894
MwoI	GCNNNNNNNGC	3 cut(s)	11, 416, 503
NdeII	GATC	3 cut(s)	667, 880, 1087
NlaIII	CATG	4 cut(s)	60, 358, 391, 914
NlaIV	GGNNCC	1 cut(s)	566
NmuCI	GTSAC	1 cut(s)	612
NsbI	TGCGCA	1 cut(s)	15
NspI	RCATGY	1 cut(s)	60
PagI	TCATGA	2 cut(s)	354, 910
PciI	ACATGT	1 cut(s)	56
PctI	GAATGC	2 cut(s)	16, 455
PdmI	GAANNNNTTC	3 cut(s)	90, 190, 719
PfeI	GAWTC	2 cut(s)	394, 739
PkrI	GCNGC	3 cut(s)	13, 496, 1102
PleI	GAGTC	3 cut(s)	343, 348, 796
PpsI	GAGTC	3 cut(s)	343, 348, 796
PpuMI	RGGWCCY	1 cut(s)	565
PscI	ACATGT	1 cut(s)	56
PshBI	ATTAAT	1 cut(s)	297
Psp124BI	GAGCTC	1 cut(s)	1380
Psp5II	RGGWCCY	1 cut(s)	565
Psp6I	CCWGG	1 cut(s)	892
PspGI	CCWGG	1 cut(s)	892
PspN4I	GGNNCC	1 cut(s)	566
PspPI	GGNCC	2 cut(s)	565, 1157
PspPPI	RGGWCCY	1 cut(s)	565
PstNI	CAGNNNCTG	1 cut(s)	791
PsuI	RGATCY	2 cut(s)	667, 880
RsaI	GTAC	3 cut(s)	55, 630, 947
RsaNI	GTAC	3 cut(s)	54, 629, 946
RseI	CAYNNNNRTG	2 cut(s)	386, 915
SacI	GAGCTC	1 cut(s)	1380
SaqAI	TTAA	8 cut(s)	297, 330, 444, 555, 597, 708, 1305, 1314
SatI	GCNGC	3 cut(s)	12, 495, 1101
Sau3AI	GATC	3 cut(s)	667, 880, 1087
Sau96I	GGNCC	2 cut(s)	565, 1157
SchI	GAGTC	3 cut(s)	344, 349, 797
ScrFI	CCNGG	1 cut(s)	894
SduI	GDGCHC	2 cut(s)	774, 1380
SfaNI	GCATC	3 cut(s)	406, 742, 1006
SinI	GGWCC	1 cut(s)	565
SmiMI	CAYNNNNRTG	2 cut(s)	386, 915
SmlI	CTYRAG	3 cut(s)	443, 1196, 1336
SmoI	CTYRAG	3 cut(s)	443, 1196, 1336
SpeI	ACTAGT	2 cut(s)	269, 728
Sse9I	AATT	7 cut(s)	131, 167, 593, 653, 776, 808, 869
SsiI	CCGC	3 cut(s)	561, 840, 1155
SspMI	CTAG	3 cut(s)	228, 270, 729
SstI	GAGCTC	1 cut(s)	1380
StyD4I	CCNGG	1 cut(s)	892
TaaI	ACNGT	4 cut(s)	581, 1004, 1034, 1081
TaqI	TCGA	4 cut(s)	338, 414, 529, 853
TasI	AATT	7 cut(s)	131, 167, 593, 653, 776, 808, 869
TatI	WGTACW	1 cut(s)	53
TfiI	GAWTC	2 cut(s)	394, 739
Tru1I	TTAA	8 cut(s)	297, 330, 444, 555, 597, 708, 1305, 1314
Tru9I	TTAA	8 cut(s)	297, 330, 444, 555, 597, 708, 1305, 1314
TscAI	CASTG	4 cut(s)	12, 586, 615, 1084
TseFI	GTSAC	1 cut(s)	612
TseI	GCWGC	3 cut(s)	11, 494, 1100
Tsp45I	GTSAC	1 cut(s)	612
TspDTI	ATGAA	8 cut(s)	160, 316, 343, 371, 606, 615, 650, 712
TspGWI	ACGGA	1 cut(s)	557
TspRI	CASTG	4 cut(s)	12, 586, 615, 1084
Vha464I	CTTAAG	1 cut(s)	443
VneI	GTGCAC	1 cut(s)	770
VpaK11BI	GGWCC	1 cut(s)	565
VspI	ATTAAT	1 cut(s)	297
XapI	RAATTY	6 cut(s)	131, 593, 653, 776, 808, 869
XceI	RCATGY	1 cut(s)	60
XcmI	CCANNNNNNNNNTGG	2 cut(s)	788, 1357
XmiI	GTMKAC	1 cut(s)	996
XmnI	GAANNNNTTC	3 cut(s)	90, 190, 719
XspI	CTAG	3 cut(s)	228, 270, 729

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