Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0010651

Physical Location & Seq

Genomic Coordinates Forward (+)

33853276 .. 33857116

Gene Structure 3841 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG276700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1248 bp

ATGATGCAACAGCCATCAGGAGGAGTCGTCCCGGCGGATCAGCAGCCGCAGCAGCAATACCAGCAGCAACCGCCGCAGCAGTGGATGATGATGCCGCCGCAGCAGCAACACCAAGCTGCTGCTGCTGCTCAGGCCGGGTGGGCCCAGCAGCAGGCGGCTATGCAGCAGCAGCAGCAGCCTCAGCAGTACACGGCCGCGGCAGCGAGCCAGGGCTCCGATGAGATCCGATCGCTCTGGATCGGCGACTTGCTCCCGTGGATGGATGAGAACTACATCCTCAACTGCTTCGGTCCCACCGGAGAGGCTGTGAATGCAAAGGTTATCCGTAACAAGCAAACAGGACTGCCAGAAGGGTATGGTTTTATTGAGTTTAGGACTCGCAGCGCCGCTGAGCAGGTTTTGCAGAACTACAATGGTACAGTGATGCCCAGCACTGAGCAGAATTTCCGCCTCAACTGGGCCACCCTGGGGGCTGGTGAAAGGCGCCAGGATGATGGCCCGGACTATACTGTTTTTGTTGGCGATTTGGCCGCTGATGTTACCGATTATACCCTTCAAGAGACATTTAGGGCTCATTACCACTCTGTGAAGGGTGCAAAAGTTGTCACTGATAGGACCACCGGACGCTCTAAGGGATATGGTTTTGTTAGGTTTGGAGATGAGAGTGAACAGTTGCGAGCAATGAATGAGATGAATGGTCAGTTTTGCTCTAGCAGACCCATGAGGATTGGGCCTGCTGCTACTAAGAAACCAGTTGGTGGTGGACAACCTTATCAAAAAGCTGCCTACCCAAGTTCTCAAGGAAATCCAGGCGAGGCTGACCCAAATAACACAACAATATTTGTTGGGGGTTTGGATCCCAGTGTCGATGATGAAATGTTGAGACAATCTTTTGGCATGTTTGGTGAGCTAGTTCATGTGAAGATACCAGTTGGCAAGCGATGTGGTTTTGTTCAATTTGCTAACAGAGCTTGTGCGGAGCAAGCATTGTCGGTGATGAATGGACGAGTAGTGGGATCACAAAGTGTTAGGCTTTCTTGGGGCCGTAGTCCTTCAAGCAAACAGAACCAGCCAGAACAGACACAGTGGAATGGTGCTGGTGGTGCTGGATTTTATCAATATCCCCAAGGATATGATGCGTATACATATGCACCTCCTACCCAAGACCCTAACCTGTACTATGGAGGGTATGCTGGCTATGGAAATTACCAGCAGCCTGGTGCAGCTTACCAACAGCAACAGCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0008143 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0070717 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

415

Amino Acids

45.69

Weight (kDa)

5.68

Isoelectric Point (pI)

55.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	78 - 145	5.8e-11	RNA recognition motif
RRM_1	PF00076	171 - 241	7.9e-15	RNA recognition motif
RRM_1	PF00076	280 - 343	1.9e-14	RNA recognition motif

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: OG0010651)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G27000 AT5G54900
fragaria_vesca	FvH4_3g22530
malus_domestica	MD03G1202200.v1.1 MD11G1219500.v1.1 MD11G1219600.v1.1
prunus_persica	Prupe.4G211700_v2.0.a1
pyrus_communis	pycom03g15360 pycom11g19340
rosa_chinensis	RchiOBHm_Chr5g0039271
rosa_laevigata	RLG00000033901
rosa_multiflora	Rmu_sc0033883.1_g000002 Rmu_ssc0000410.1_g000047
rosa_roxburghii	Rroxscaffold_1G00040460 Rroxscaffold_1G00041870
rosa_rugosa	Rorug05G0177400
rosa_samantha	Rh5BG269000 Rh5CG302000 Rh5DG276700
rosa_wichuraiana	Rw5G024760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	385
AccB1I	GGYRCC	1 cut(s)	483
AccB7I	CCANNNNNTGG	1 cut(s)	758
AccI	GTMKAC	1 cut(s)	1142
AccII	CGCG	1 cut(s)	197
AclWI	GGATC	6 cut(s)	45, 217, 245, 851, 864, 1024
AcoI	YGGCCR	2 cut(s)	192, 528
AcsI	RAATTY	1 cut(s)	442
AcyI	GRCGYC	1 cut(s)	484
AdeI	CACNNNGTG	2 cut(s)	586, 1025
AfaI	GTAC	3 cut(s)	188, 418, 1178
AfiI	CCNNNNNNNGG	6 cut(s)	20, 151, 259, 457, 468, 758
AgsI	TTSAA	3 cut(s)	557, 956, 1056
AjnI	CCWGG	5 cut(s)	207, 465, 486, 808, 1216
AluBI	AGCT	5 cut(s)	116, 782, 910, 971, 1226
AluI	AGCT	5 cut(s)	116, 782, 910, 971, 1226
Alw26I	GTCTC	2 cut(s)	554, 877
AlwI	GGATC	6 cut(s)	45, 217, 245, 851, 864, 1024
AoxI	GGCC	8 cut(s)	132, 141, 192, 459, 496, 528, 731, 1042
ApaI	GGGCCC	1 cut(s)	145
ApoI	RAATTY	1 cut(s)	442
AspLEI	GCGC	2 cut(s)	386, 486
AspS9I	GGNCC	8 cut(s)	141, 142, 290, 459, 497, 615, 731, 1042
AsuC2I	CCSGG	3 cut(s)	32, 136, 500
AsuHPI	GGTGA	3 cut(s)	488, 917, 1006
AvaII	GGWCC	2 cut(s)	290, 615
BaeGI	GKGCMC	1 cut(s)	145
BamHI	GGATCC	1 cut(s)	856
BanI	GGYRCC	1 cut(s)	483
BanII	GRGCYC	3 cut(s)	145, 215, 574
BbvCI	CCTCAGC	1 cut(s)	180
BccI	CCATC	3 cut(s)	22, 253, 488
BceAI	ACGGC	2 cut(s)	207, 1029
BciT130I	CCWGG	5 cut(s)	209, 467, 488, 810, 1218
BcnI	CCSGG	3 cut(s)	32, 136, 500
BcoDI	GTCTC	2 cut(s)	554, 877
BfaI	CTAG	2 cut(s)	711, 911
BfoI	RGCGCY	2 cut(s)	387, 487
BfuAI	ACCTGC	1 cut(s)	385
BglI	GCCNNNNNGGC	1 cut(s)	140
BlpI	GCTNAGC	1 cut(s)	390
Bme1390I	CCNGG	8 cut(s)	32, 136, 209, 467, 488, 500, 810, 1218
Bme18I	GGWCC	2 cut(s)	290, 615
BmgT120I	GGNCC	8 cut(s)	141, 142, 290, 459, 497, 615, 731, 1042
BmiI	GGNNCC	6 cut(s)	143, 214, 292, 485, 858, 1043
BmrFI	CCNGG	8 cut(s)	32, 136, 209, 467, 488, 500, 810, 1218
BmrI	ACTGGG	2 cut(s)	466, 855
BmsI	GCATC	3 cut(s)	81, 414, 1126
BmuI	ACTGGG	2 cut(s)	466, 855
Bpu10I	CCTNAGC	2 cut(s)	129, 180
Bpu1102I	GCTNAGC	1 cut(s)	390
BpuEI	CTTGAG	1 cut(s)	783
BpuMI	CCSGG	3 cut(s)	32, 136, 500
BsaHI	GRCGYC	1 cut(s)	484
BsaJI	CCNNGG	6 cut(s)	195, 208, 254, 465, 466, 1126
BsaWI	WCCGGW	2 cut(s)	296, 620
BsaXI	ACNNNNNCTCC	4 cut(s)	12, 42, 291, 321
Bsc4I	CCNNNNNNNGG	6 cut(s)	20, 151, 259, 457, 468, 758
Bse1I	ACTGG	4 cut(s)	461, 752, 861, 929
Bse3DI	GCAATG	1 cut(s)	687
BseBI	CCWGG	5 cut(s)	209, 467, 488, 810, 1218
BseDI	CCNNGG	6 cut(s)	195, 208, 254, 465, 466, 1126
BseGI	GGATG	5 cut(s)	90, 264, 268, 273, 496
BseLI	CCNNNNNNNGG	6 cut(s)	20, 151, 259, 457, 468, 758
BseMI	GCAATG	1 cut(s)	687
BseMII	CTCAG	4 cut(s)	143, 194, 381, 426
BseNI	ACTGG	4 cut(s)	461, 752, 861, 929
BseRI	GAGGAG	1 cut(s)	36
BseSI	GKGCMC	1 cut(s)	145
BseX3I	CGGCCG	1 cut(s)	192
BseYI	CCCAGC	2 cut(s)	144, 428
BsgI	GTGCAG	1 cut(s)	1242
Bsh1236I	CGCG	1 cut(s)	197
Bsh1285I	CGRYCG	2 cut(s)	195, 230
BshFI	GGCC	8 cut(s)	134, 143, 194, 461, 498, 530, 733, 1044
BshNI	GGYRCC	1 cut(s)	483
BsiEI	CGRYCG	2 cut(s)	195, 230
BsiSI	CCGG	5 cut(s)	32, 135, 297, 500, 621
BslFI	GGGAC	2 cut(s)	14, 276
BslI	CCNNNNNNNGG	6 cut(s)	20, 151, 259, 457, 468, 758
BsmAI	GTCTC	2 cut(s)	554, 877
BsmFI	GGGAC	2 cut(s)	14, 276
BsmI	GAATGC	1 cut(s)	316
BsnI	GGCC	8 cut(s)	134, 143, 194, 461, 498, 530, 733, 1044
Bsp120I	GGGCCC	1 cut(s)	141
Bsp1286I	GDGCHC	3 cut(s)	145, 215, 574
Bsp143I	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
Bsp1720I	GCTNAGC	1 cut(s)	390
BspANI	GGCC	8 cut(s)	134, 143, 194, 461, 498, 530, 733, 1044
BspCNI	CTCAG	4 cut(s)	142, 193, 382, 427
BspFNI	CGCG	1 cut(s)	197
BspLI	GGNNCC	6 cut(s)	143, 214, 292, 485, 858, 1043
BspMI	ACCTGC	1 cut(s)	385
BspPI	GGATC	6 cut(s)	45, 217, 245, 851, 864, 1024
BspT107I	GGYRCC	1 cut(s)	483
BsrDI	GCAATG	1 cut(s)	687
BsrI	ACTGG	4 cut(s)	461, 752, 861, 929
BssECI	CCNNGG	6 cut(s)	195, 208, 254, 465, 466, 1126
BssMI	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
BssNAI	GTATAC	1 cut(s)	1143
BssNI	GRCGYC	1 cut(s)	484
BssT1I	CCWWGG	1 cut(s)	1126
Bst1107I	GTATAC	1 cut(s)	1143
Bst2UI	CCWGG	5 cut(s)	209, 467, 488, 810, 1218
Bst4CI	ACNGT	4 cut(s)	421, 511, 672, 1086
BstACI	GRCGYC	1 cut(s)	484
BstAPI	GCANNNNNTGC	1 cut(s)	400
BstC8I	GCNNGC	7 cut(s)	153, 205, 678, 735, 938, 984, 1195
BstDEI	CTNAG	6 cut(s)	129, 180, 390, 435, 630, 744
BstDSI	CCRYGG	2 cut(s)	195, 254
BstF5I	GGATG	5 cut(s)	90, 264, 268, 273, 496
BstFNI	CGCG	1 cut(s)	197
BstH2I	RGCGCY	2 cut(s)	387, 487
BstHHI	GCGC	2 cut(s)	386, 486
BstKTI	GATC	6 cut(s)	40, 225, 230, 240, 859, 1019
BstMAI	GTCTC	2 cut(s)	554, 877
BstMBI	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
BstMCI	CGRYCG	2 cut(s)	195, 230
BstNI	CCWGG	5 cut(s)	209, 467, 488, 810, 1218
BstNSI	RCATGY	1 cut(s)	901
BstSCI	CCNGG	8 cut(s)	30, 134, 207, 465, 486, 498, 808, 1216
BstSLI	GKGCMC	1 cut(s)	145
BstUI	CGCG	1 cut(s)	197
BstX2I	RGATCY	2 cut(s)	222, 856
BstXI	CCANNNNNNTGG	2 cut(s)	494, 1217
BstYI	RGATCY	2 cut(s)	222, 856
BstZ17I	GTATAC	1 cut(s)	1143
BstZI	CGGCCG	1 cut(s)	192
BsuRI	GGCC	8 cut(s)	134, 143, 194, 461, 498, 530, 733, 1044
BtgI	CCRYGG	2 cut(s)	195, 254
BtgZI	GCGATG	1 cut(s)	955
BtsCI	GGATG	5 cut(s)	90, 264, 268, 273, 496
BtsI	GCAGTG	1 cut(s)	86
BtsIMutI	CAGTG	6 cut(s)	86, 426, 432, 606, 868, 1091
BveI	ACCTGC	1 cut(s)	385
Cac8I	GCNNGC	7 cut(s)	153, 205, 678, 735, 938, 984, 1195
CfoI	GCGC	2 cut(s)	386, 486
Cfr13I	GGNCC	8 cut(s)	141, 142, 290, 459, 497, 615, 731, 1042
Cfr42I	CCGCGG	1 cut(s)	198
CseI	GACGC	1 cut(s)	633
Csp6I	GTAC	3 cut(s)	187, 417, 1177
CspCI	CAANNNNNGTGG	2 cut(s)	925, 960
CviAII	CATG	3 cut(s)	721, 898, 917
CviQI	GTAC	3 cut(s)	187, 417, 1177
DdeI	CTNAG	6 cut(s)	129, 180, 390, 435, 630, 744
DinI	GGCGCC	1 cut(s)	485
DpnI	GATC	6 cut(s)	39, 224, 229, 239, 858, 1018
DpnII	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
DraIII	CACNNNGTG	2 cut(s)	586, 1025
EaeI	YGGCCR	2 cut(s)	192, 528
EagI	CGGCCG	1 cut(s)	192
EciI	GGCGGA	2 cut(s)	50, 437
EclXI	CGGCCG	1 cut(s)	192
Eco130I	CCWWGG	1 cut(s)	1126
Eco24I	GRGCYC	3 cut(s)	145, 215, 574
Eco47I	GGWCC	2 cut(s)	290, 615
Eco52I	CGGCCG	1 cut(s)	192
EcoRII	CCWGG	5 cut(s)	207, 465, 486, 808, 1216
EcoT14I	CCWWGG	1 cut(s)	1126
EcoT38I	GRGCYC	3 cut(s)	145, 215, 574
EgeI	GGCGCC	1 cut(s)	485
EheI	GGCGCC	1 cut(s)	485
ErhI	CCWWGG	1 cut(s)	1126
FaeI	CATG	3 cut(s)	724, 901, 920
FaqI	GGGAC	2 cut(s)	14, 276
FatI	CATG	3 cut(s)	720, 897, 916
FauNDI	CATATG	1 cut(s)	1147
FblI	GTMKAC	1 cut(s)	1142
FokI	GGATG	5 cut(s)	97, 260, 271, 275, 503
FriOI	GRGCYC	3 cut(s)	145, 215, 574
FspBI	CTAG	2 cut(s)	711, 911
GlaI	GCGC	2 cut(s)	385, 485
GsaI	CCCAGC	2 cut(s)	148, 432
HaeII	RGCGCY	2 cut(s)	387, 487
HaeIII	GGCC	8 cut(s)	134, 143, 194, 461, 498, 530, 733, 1044
HapII	CCGG	5 cut(s)	32, 135, 297, 500, 621
HgaI	GACGC	1 cut(s)	633
HhaI	GCGC	2 cut(s)	386, 486
Hin1I	GRCGYC	1 cut(s)	484
Hin1II	CATG	3 cut(s)	724, 901, 920
Hin6I	GCGC	2 cut(s)	384, 484
HinP1I	GCGC	2 cut(s)	384, 484
HinfI	GANTC	2 cut(s)	24, 376
HpaII	CCGG	5 cut(s)	32, 135, 297, 500, 621
HphI	GGTGA	3 cut(s)	488, 917, 1006
Hpy166II	GTNNAC	4 cut(s)	189, 668, 764, 1143
Hpy188I	TCNGA	2 cut(s)	217, 227
Hpy188III	TCNNGA	3 cut(s)	18, 235, 557
Hpy8I	GTNNAC	4 cut(s)	189, 668, 764, 1143
HpyAV	CCTTC	4 cut(s)	344, 563, 583, 1062
HpyCH4III	ACNGT	4 cut(s)	421, 511, 672, 1086
HpyCH4V	TGCA	7 cut(s)	7, 163, 314, 403, 596, 1151, 1223
HpyF3I	CTNAG	6 cut(s)	129, 180, 390, 435, 630, 744
Hsp92I	GRCGYC	1 cut(s)	484
Hsp92II	CATG	3 cut(s)	724, 901, 920
HspAI	GCGC	2 cut(s)	384, 484
KasI	GGCGCC	1 cut(s)	483
KspI	CCGCGG	1 cut(s)	198
Kzo9I	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
LmnI	GCTCC	3 cut(s)	218, 255, 979
LweI	GCATC	3 cut(s)	81, 414, 1126
MaeI	CTAG	2 cut(s)	711, 911
MaeIII	GTNAC	3 cut(s)	326, 538, 604
MalI	GATC	6 cut(s)	39, 224, 229, 239, 858, 1018
MboI	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
MboII	GAAGA	1 cut(s)	934
MflI	RGATCY	2 cut(s)	222, 856
MhlI	GDGCHC	3 cut(s)	145, 215, 574
MluCI	AATT	3 cut(s)	442, 956, 1204
Mly113I	GGCGCC	1 cut(s)	484
MlyI	GAGTC	2 cut(s)	33, 370
MnlI	CCTC	9 cut(s)	14, 189, 287, 295, 461, 717, 808, 1164, 1178
MspA1I	CMGCKG	3 cut(s)	197, 389, 533
MspI	CCGG	5 cut(s)	32, 135, 297, 500, 621
MspR9I	CCNGG	8 cut(s)	32, 136, 209, 467, 488, 500, 810, 1218
Mva1269I	GAATGC	1 cut(s)	316
MvaI	CCWGG	5 cut(s)	209, 467, 488, 810, 1218
MvnI	CGCG	1 cut(s)	197
NarI	GGCGCC	1 cut(s)	484
NciI	CCSGG	3 cut(s)	32, 136, 500
NdeI	CATATG	1 cut(s)	1147
NdeII	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
NlaIII	CATG	3 cut(s)	724, 901, 920
NlaIV	GGNNCC	6 cut(s)	143, 214, 292, 485, 858, 1043
NmuCI	GTSAC	1 cut(s)	604
NspI	RCATGY	1 cut(s)	901
PasI	CCCWGGG	1 cut(s)	466
PctI	GAATGC	1 cut(s)	316
PflMI	CCANNNNNTGG	1 cut(s)	758
Ple19I	CGATCG	1 cut(s)	230
PleI	GAGTC	2 cut(s)	32, 370
PluTI	GGCGCC	1 cut(s)	487
PpsI	GAGTC	2 cut(s)	32, 370
Psp6I	CCWGG	5 cut(s)	207, 465, 486, 808, 1216
PspFI	CCCAGC	2 cut(s)	144, 428
PspGI	CCWGG	5 cut(s)	207, 465, 486, 808, 1216
PspN4I	GGNNCC	6 cut(s)	143, 214, 292, 485, 858, 1043
PspOMI	GGGCCC	1 cut(s)	141
PspPI	GGNCC	8 cut(s)	141, 142, 290, 459, 497, 615, 731, 1042
PsuI	RGATCY	2 cut(s)	222, 856
PvuI	CGATCG	1 cut(s)	230
RsaI	GTAC	3 cut(s)	188, 418, 1178
RsaNI	GTAC	3 cut(s)	187, 417, 1177
SacII	CCGCGG	1 cut(s)	198
Sau3AI	GATC	6 cut(s)	37, 222, 227, 237, 856, 1016
Sau96I	GGNCC	8 cut(s)	141, 142, 290, 459, 497, 615, 731, 1042
SchI	GAGTC	2 cut(s)	33, 370
ScrFI	CCNGG	8 cut(s)	32, 136, 209, 467, 488, 500, 810, 1218
SduI	GDGCHC	3 cut(s)	145, 215, 574
SfaNI	GCATC	3 cut(s)	81, 414, 1126
SfiI	GGCCNNNNNGGCC	1 cut(s)	140
SfoI	GGCGCC	1 cut(s)	485
Sfr303I	CCGCGG	1 cut(s)	198
SgrBI	CCGCGG	1 cut(s)	198
SinI	GGWCC	2 cut(s)	290, 615
SmlI	CTYRAG	1 cut(s)	798
SmoI	CTYRAG	1 cut(s)	798
Sse9I	AATT	3 cut(s)	442, 956, 1204
SspDI	GGCGCC	1 cut(s)	483
SspI	AATATT	1 cut(s)	840
SspMI	CTAG	2 cut(s)	711, 911
StyD4I	CCNGG	8 cut(s)	30, 134, 207, 465, 486, 498, 808, 1216
StyI	CCWWGG	1 cut(s)	1126
TaaI	ACNGT	4 cut(s)	421, 511, 672, 1086
TaqI	TCGA	1 cut(s)	867
TaqII	GACCGA	1 cut(s)	278
TasI	AATT	3 cut(s)	442, 956, 1204
TatI	WGTACW	2 cut(s)	186, 1176
TauI	GCSGC	9 cut(s)	49, 76, 97, 100, 158, 197, 200, 389, 533
TscAI	CASTG	6 cut(s)	86, 426, 439, 613, 868, 1091
TseFI	GTSAC	1 cut(s)	604
Tsp45I	GTSAC	1 cut(s)	604
TspDTI	ATGAA	5 cut(s)	698, 707, 888, 905, 1013
TspGWI	ACGGA	1 cut(s)	314
TspRI	CASTG	6 cut(s)	86, 426, 439, 613, 868, 1091
Van91I	CCANNNNNTGG	1 cut(s)	758
VpaK11BI	GGWCC	2 cut(s)	290, 615
XapI	RAATTY	1 cut(s)	442
XceI	RCATGY	1 cut(s)	901
XmiI	GTMKAC	1 cut(s)	1142
XspI	CTAG	2 cut(s)	711, 911

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