Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001402

Physical Location & Seq

Genomic Coordinates Forward (+)

88893444 .. 88896838

Gene Structure 3395 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG559700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1623 bp

ATGGAAACTCTGAGAGTTTCATCTATTCCATCATTACAAATTCCATCTAAATTTGATAAAACCCAATCAAAGAAACTCACTTTCTTGGGTTTTAATCAAACACCCAGTTCATCATTCTCATTGGTTCAAAGAAACAAACCAACATTCAAGACATTCACCACCATATCTTCCTCTATTGCAACTGAGACTGAAAACCCATCTGGACCACAAGTTGAAACTCAAACCCAAGATGACAAATTTGATTGGTATGCCCATTGGTACCCATTGATGCCAGTCTGTGACCTTGACAAGAGAGTCCCACATGCAAAGAAAGTTCTGGGTATTGATGTGGTGGTGTGGTGGGACAAAAATGAAAGTACATGGAAGGTGTTTGATGATGCTTGTCCTCACAGATTGGCTCCATTATCTGAAGGGAGGATTGATCAGTGGGGAAGGTTGCAGTGTGTTTATCATGGCTGGTGTTTTAATGGCTCTGGTGACTGCAAGTTCATTCCTCAAGCACCCAAAGATGGCCCTCCGATTCACACTTCGAAGAAAGCATGTGTAGGTGCTTATCCAAGTACCGTGCAGAATGGAATCGTGTGGTTCTGGCCAAGTTCTGATCCTCAATACAAAGATATTCTTGCAGAGAAAAAGCCTCCCTACATACCGGAAATAGATGATCCATCATATGCTAGCTTGATGGGAAATAGGGAGATACCTTACGGGTACGAGGTCTTGATTGAAAATCTTATGGACCCTGCTCATGTTCCATACGCACATTATGGAATAATGCAAACTCGACAACCCAAAGAGAAAGCTGATAGAGAAGGGGGCAGACCATTGGACTTTTATATTCCTAAGTTAGACATAAATGGTTTCATCGCAGAGCAGAATCCAGGTCACAGTATATTTCTGCCGCCATGTGTGTTTTGTGTTTCTATCTTTAGTCCAGTTGACCATATTAGTGGGGCTGCATCCTCACCTGGAACTGAAAAGGTATTATCACCCCAAACGGGACAAAAGCAAGCTCTTTTAGTTTTTATCTGCGTTCCAGTTAGTCCAGGTCATAGCAGATTGATATGGACTTTCCCAAGAAACTTTGGCGTTTGGATTGACAGGATTGTTCCACGATGGATATTTCATATTGGGCAAAACCTGATTCTGGACTCGGATTTATATTTGCTTCATATTGAGGAACATAGGATAATGGATGCTAGCCCTACCCAGTGGCAGAAAGCTTGTTTTGTGCCAACAAAGTCAGATGCCCTTGTTGTTGGTTTCCGAAAGTGGTTAAACAAGTATGCGGGTGGTCAGGTAGATTGGAGAGGCAAGTTCACTGGGGCTTTACCGCCCACTGCTCCTAAAGAACAGTTGTTGGACAGGTACCGGTCTCATGTGGTAAACTGCAGCAGTTGCAATTCTGCCTACAAAGCTCTAGGCGTGCTTGAAGTCGTATTGCAGGTCTTCTCGTTTTCTTTACTTGGAATTGTCGCTGCAATTAAGCAAGGAGTATTATCATCACTGGCTGCGAGAACTGCGCTAGTTGCAACAGCTCTACTATGCTTTGCAGGTTCAAAATGGTTGGCTCATTTTATCCACAAAAACTTTCACTTTCACGACTACAACCATGCCCTGGTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PaO Rieske

Protein Analysis

540

Amino Acids

60.7

Weight (kDa)

8.43

Isoelectric Point (pI)

44.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rieske	PF00355	85 - 169	9.4e-24	Rieske [2Fe-2S] domain
PaO	PF08417	298 - 400	4.1e-27	Pheophorbide a oxygenase

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: OG0001402)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G25650 AT4G25650
fragaria_vesca	FvH4_3g45360 FvH4_3g45360 FvH4_3g45360 FvH4_3g45400 FvH4_3g45401 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02730 FvH4_7g02730 FvH4_7g02731
malus_domestica	MD03G1005500.v1.1 MD11G1008100.v1.1 MD11G1008200.v1.1
prunus_persica	Prupe.6G005300_v2.0.a1 Prupe.6G005300_v2.0.a1
pyrus_communis	pycom03g00570 pycom11g00550
rosa_chinensis	RchiOBHm_Chr1g0321981 RchiOBHm_Chr5g0083181 RchiOBHm_Chr5g0083211
rosa_laevigata	RLG00000030397 RLG00000030398 RLG00000037017
rosa_multiflora	Rmu_sc0007027.1_g000001 Rmu_sc0028710.1_g000001 Rmu_sc0041156.1_g000001 Rmu_sc0042838.1_g000001 Rmu_ssc0000026.1_g000007
rosa_roxburghii	Rroxscaffold_1G00001290 Rroxscaffold_4G00327380
rosa_rugosa	Rorug01G0034800 Rorug05G0482900 Rorug05G0483300
rosa_samantha	Rh1AG047700 Rh1CG051800 Rh1CG052000 Rh1CG052100 Rh1DG056000 Rh1DG056200 Rh1DG056300 Rh5AG532500 Rh5AG532700 Rh5BG559700 Rh5DG568400
rosa_wichuraiana	Rw1G004350 Rw5G050050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	293
Acc36I	ACCTGC	2 cut(s)	1432, 1541
Acc65I	GGTACC	2 cut(s)	258, 1365
AccB1I	GGYRCC	2 cut(s)	258, 1365
AccB7I	CCANNNNNTGG	1 cut(s)	1615
AciI	CCGC	3 cut(s)	899, 1286, 1331
AclWI	GGATC	2 cut(s)	596, 656
AcoI	YGGCCR	1 cut(s)	590
AcsI	RAATTY	3 cut(s)	39, 50, 236
AcuI	CTGAAG	1 cut(s)	429
AfaI	GTAC	5 cut(s)	260, 358, 562, 710, 1367
AfiI	CCNNNNNNNGG	4 cut(s)	509, 995, 1144, 1615
AgeI	ACCGGT	1 cut(s)	1368
AgsI	TTSAA	6 cut(s)	128, 148, 215, 725, 1430, 1557
AjnI	CCWGG	4 cut(s)	877, 964, 1042, 1614
AluBI	AGCT	6 cut(s)	678, 800, 1010, 1220, 1415, 1535
AluI	AGCT	6 cut(s)	678, 800, 1010, 1220, 1415, 1535
Alw26I	GTCTC	2 cut(s)	179, 1377
AlwI	GGATC	2 cut(s)	596, 656
AoxI	GGCC	2 cut(s)	511, 590
ApeKI	GCWGC	4 cut(s)	953, 1389, 1475, 1508
ApoI	RAATTY	3 cut(s)	39, 50, 236
AsiGI	ACCGGT	1 cut(s)	1368
Asp718I	GGTACC	2 cut(s)	258, 1365
AspLEI	GCGC	1 cut(s)	1522
AspS9I	GGNCC	3 cut(s)	203, 512, 736
AsuHPI	GGTGA	4 cut(s)	148, 488, 954, 978
AsuII	TTCGAA	1 cut(s)	530
AsuNHI	GCTAGC	2 cut(s)	674, 1196
AvaII	GGWCC	2 cut(s)	203, 736
BalI	TGGCCA	1 cut(s)	592
BanI	GGYRCC	2 cut(s)	258, 1365
BbsI	GAAGAC	1 cut(s)	1438
BbvI	GCAGC	4 cut(s)	940, 1401, 1462, 1495
BccI	CCATC	7 cut(s)	37, 52, 205, 503, 673, 676, 1107
BciT130I	CCWGG	4 cut(s)	879, 966, 1044, 1616
BclI	TGATCA	1 cut(s)	421
BcoDI	GTCTC	2 cut(s)	179, 1377
BfaI	CTAG	4 cut(s)	675, 1197, 1418, 1523
BfmI	CTRYAG	1 cut(s)	1387
BfuAI	ACCTGC	2 cut(s)	1432, 1541
BisI	GCNGC	5 cut(s)	899, 954, 1390, 1476, 1509
BlsI	GCNGC	5 cut(s)	900, 955, 1391, 1477, 1510
Bme1390I	CCNGG	4 cut(s)	879, 966, 1044, 1616
Bme18I	GGWCC	2 cut(s)	203, 736
BmgT120I	GGNCC	3 cut(s)	203, 512, 736
BmiI	GGNNCC	4 cut(s)	260, 399, 738, 1367
BmrFI	CCNGG	4 cut(s)	879, 966, 1044, 1616
BmrI	ACTGGG	3 cut(s)	99, 1201, 1329
BmsI	GCATC	5 cut(s)	258, 367, 965, 1183, 1234
BmtI	GCTAGC	2 cut(s)	678, 1200
BmuI	ACTGGG	3 cut(s)	99, 1201, 1329
BpiI	GAAGAC	1 cut(s)	1438
Bpu14I	TTCGAA	1 cut(s)	530
BpuEI	CTTGAG	1 cut(s)	480
BsaI	GGTCTC	1 cut(s)	1377
BsaJI	CCNNGG	1 cut(s)	1614
BsaWI	WCCGGW	2 cut(s)	649, 1368
Bsc4I	CCNNNNNNNGG	4 cut(s)	509, 995, 1144, 1615
Bse118I	RCCGGY	1 cut(s)	1368
Bse1I	ACTGG	7 cut(s)	105, 272, 932, 1034, 1207, 1324, 1509
BseBI	CCWGG	4 cut(s)	879, 966, 1044, 1616
BseDI	CCNNGG	1 cut(s)	1614
BseGI	GGATG	2 cut(s)	956, 1198
BseLI	CCNNNNNNNGG	4 cut(s)	509, 995, 1144, 1615
BseMII	CTCAG	1 cut(s)	174
BseNI	ACTGG	7 cut(s)	105, 272, 932, 1034, 1207, 1324, 1509
BseXI	GCAGC	4 cut(s)	940, 1401, 1462, 1495
BsgI	GTGCAG	1 cut(s)	587
BshFI	GGCC	2 cut(s)	513, 592
BshNI	GGYRCC	2 cut(s)	258, 1365
BshTI	ACCGGT	1 cut(s)	1368
BsiSI	CCGG	2 cut(s)	650, 1369
BslFI	GGGAC	3 cut(s)	281, 356, 1011
BslI	CCNNNNNNNGG	4 cut(s)	509, 995, 1144, 1615
BsmAI	GTCTC	2 cut(s)	179, 1377
BsmFI	GGGAC	3 cut(s)	281, 356, 1011
BsnI	GGCC	2 cut(s)	513, 592
Bso31I	GGTCTC	1 cut(s)	1377
Bsp119I	TTCGAA	1 cut(s)	530
Bsp143I	GATC	3 cut(s)	421, 601, 661
BspACI	CCGC	3 cut(s)	899, 1286, 1331
BspANI	GGCC	2 cut(s)	513, 592
BspCNI	CTCAG	1 cut(s)	175
BspLI	GGNNCC	4 cut(s)	260, 399, 738, 1367
BspMAI	CTGCAG	1 cut(s)	1391
BspMI	ACCTGC	2 cut(s)	1432, 1541
BspOI	GCTAGC	2 cut(s)	678, 1200
BspPI	GGATC	2 cut(s)	596, 656
BspT104I	TTCGAA	1 cut(s)	530
BspT107I	GGYRCC	2 cut(s)	258, 1365
BspTNI	GGTCTC	1 cut(s)	1377
BsrFI	RCCGGY	1 cut(s)	1368
BsrI	ACTGG	7 cut(s)	105, 272, 932, 1034, 1207, 1324, 1509
BssAI	RCCGGY	1 cut(s)	1368
BssECI	CCNNGG	1 cut(s)	1614
BssMI	GATC	3 cut(s)	421, 601, 661
Bst2UI	CCWGG	4 cut(s)	879, 966, 1044, 1616
Bst4CI	ACNGT	3 cut(s)	565, 887, 1353
BstAPI	GCANNNNNTGC	1 cut(s)	1395
BstBI	TTCGAA	1 cut(s)	530
BstC8I	GCNNGC	4 cut(s)	676, 1008, 1198, 1424
BstDEI	CTNAG	3 cut(s)	11, 183, 840
BstF5I	GGATG	2 cut(s)	956, 1198
BstHHI	GCGC	1 cut(s)	1522
BstKTI	GATC	3 cut(s)	424, 604, 664
BstMAI	GTCTC	2 cut(s)	179, 1377
BstMBI	GATC	3 cut(s)	421, 601, 661
BstMWI	GCNNNNNNNGC	4 cut(s)	1395, 1412, 1517, 1526
BstNI	CCWGG	4 cut(s)	879, 966, 1044, 1616
BstNSI	RCATGY	2 cut(s)	305, 543
BstSCI	CCNGG	4 cut(s)	877, 964, 1042, 1614
BstSFI	CTRYAG	1 cut(s)	1387
BstV1I	GCAGC	4 cut(s)	940, 1401, 1462, 1495
BstV2I	GAAGAC	1 cut(s)	1438
BstXI	CCANNNNNNTGG	1 cut(s)	947
BsuRI	GGCC	2 cut(s)	513, 592
BtgZI	GCGATG	1 cut(s)	847
BtsCI	GGATG	2 cut(s)	956, 1198
BtsI	GCAGTG	2 cut(s)	446, 1335
BtsIMutI	CAGTG	6 cut(s)	431, 446, 1214, 1317, 1335, 1502
BveI	ACCTGC	2 cut(s)	1432, 1541
Cac8I	GCNNGC	4 cut(s)	676, 1008, 1198, 1424
CfoI	GCGC	1 cut(s)	1522
Cfr10I	RCCGGY	1 cut(s)	1368
Cfr13I	GGNCC	3 cut(s)	203, 512, 736
Csp6I	GTAC	5 cut(s)	259, 357, 561, 709, 1366
CspAI	ACCGGT	1 cut(s)	1368
CviAII	CATG	8 cut(s)	302, 360, 452, 540, 746, 903, 1376, 1610
CviQI	GTAC	5 cut(s)	259, 357, 561, 709, 1366
DdeI	CTNAG	3 cut(s)	11, 183, 840
DpnI	GATC	3 cut(s)	423, 603, 663
DpnII	GATC	3 cut(s)	421, 601, 661
DrdI	GACNNNNNNGTC	1 cut(s)	293
DseDI	GACNNNNNNGTC	1 cut(s)	293
EaeI	YGGCCR	1 cut(s)	590
Eco31I	GGTCTC	1 cut(s)	1377
Eco47I	GGWCC	2 cut(s)	203, 736
Eco57I	CTGAAG	1 cut(s)	429
EcoRII	CCWGG	4 cut(s)	877, 964, 1042, 1614
FaeI	CATG	8 cut(s)	305, 363, 455, 543, 749, 906, 1379, 1613
FalI	AAGNNNNNCTT	2 cut(s)	606, 638
FaqI	GGGAC	3 cut(s)	281, 356, 1011
FatI	CATG	8 cut(s)	301, 359, 451, 539, 745, 902, 1375, 1609
FauI	CCCGC	1 cut(s)	1279
FauNDI	CATATG	1 cut(s)	670
FbaI	TGATCA	1 cut(s)	421
Fnu4HI	GCNGC	5 cut(s)	899, 954, 1390, 1476, 1509
FokI	GGATG	2 cut(s)	943, 1205
Fsp4HI	GCNGC	5 cut(s)	899, 954, 1390, 1476, 1509
FspBI	CTAG	4 cut(s)	675, 1197, 1418, 1523
GlaI	GCGC	1 cut(s)	1521
GluI	GCNGC	5 cut(s)	899, 954, 1390, 1476, 1509
HaeIII	GGCC	2 cut(s)	513, 592
HapII	CCGG	2 cut(s)	650, 1369
HhaI	GCGC	1 cut(s)	1522
Hin1II	CATG	8 cut(s)	305, 363, 455, 543, 749, 906, 1379, 1613
Hin6I	GCGC	1 cut(s)	1520
HinP1I	GCGC	1 cut(s)	1520
HincII	GTYRAC	1 cut(s)	937
HindII	GTYRAC	1 cut(s)	937
HindIII	AAGCTT	1 cut(s)	1218
HinfI	GANTC	6 cut(s)	294, 520, 576, 874, 1141, 1148
HpaII	CCGG	2 cut(s)	650, 1369
HphI	GGTGA	4 cut(s)	148, 488, 954, 978
Hpy166II	GTNNAC	3 cut(s)	937, 1317, 1384
Hpy188I	TCNGA	7 cut(s)	12, 409, 519, 601, 1153, 1243, 1265
Hpy188III	TCNNGA	5 cut(s)	148, 201, 718, 1145, 1598
Hpy8I	GTNNAC	3 cut(s)	937, 1317, 1384
HpyAV	CCTTC	4 cut(s)	358, 404, 426, 803
HpyCH4III	ACNGT	3 cut(s)	565, 887, 1353
HpyF10VI	GCNNNNNNNGC	4 cut(s)	1395, 1412, 1517, 1526
HpyF3I	CTNAG	3 cut(s)	11, 183, 840
Hsp92II	CATG	8 cut(s)	305, 363, 455, 543, 749, 906, 1379, 1613
HspAI	GCGC	1 cut(s)	1520
KpnI	GGTACC	2 cut(s)	262, 1369
Ksp22I	TGATCA	1 cut(s)	421
Kzo9I	GATC	3 cut(s)	421, 601, 661
LmnI	GCTCC	2 cut(s)	403, 1345
Lsp1109I	GCAGC	4 cut(s)	940, 1401, 1462, 1495
LweI	GCATC	5 cut(s)	258, 367, 965, 1183, 1234
MaeI	CTAG	4 cut(s)	675, 1197, 1418, 1523
MaeIII	GTNAC	3 cut(s)	278, 476, 881
MalI	GATC	3 cut(s)	423, 603, 663
MboI	GATC	3 cut(s)	421, 601, 661
MboII	GAAGA	3 cut(s)	159, 544, 1438
MlsI	TGGCCA	1 cut(s)	592
MluCI	AATT	6 cut(s)	39, 50, 236, 1399, 1467, 1479
MluNI	TGGCCA	1 cut(s)	592
MlyI	GAGTC	2 cut(s)	303, 1142
MmeI	TCCRAC	1 cut(s)	1338
Mox20I	TGGCCA	1 cut(s)	592
MscI	TGGCCA	1 cut(s)	592
MseI	TTAA	4 cut(s)	93, 465, 1274, 1482
MslI	CAYNNNNRTG	1 cut(s)	945
Msp20I	TGGCCA	1 cut(s)	592
MspI	CCGG	2 cut(s)	650, 1369
MspR9I	CCNGG	4 cut(s)	879, 966, 1044, 1616
MvaI	CCWGG	4 cut(s)	879, 966, 1044, 1616
MwoI	GCNNNNNNNGC	4 cut(s)	1395, 1412, 1517, 1526
NdeI	CATATG	1 cut(s)	670
NdeII	GATC	3 cut(s)	421, 601, 661
NheI	GCTAGC	2 cut(s)	674, 1196
NlaIII	CATG	8 cut(s)	305, 363, 455, 543, 749, 906, 1379, 1613
NlaIV	GGNNCC	4 cut(s)	260, 399, 738, 1367
NmuCI	GTSAC	3 cut(s)	278, 476, 881
NspI	RCATGY	2 cut(s)	305, 543
NspV	TTCGAA	1 cut(s)	530
PfeI	GAWTC	4 cut(s)	520, 576, 874, 1141
PflMI	CCANNNNNTGG	1 cut(s)	1615
PinAI	ACCGGT	1 cut(s)	1368
PkrI	GCNGC	5 cut(s)	900, 955, 1391, 1477, 1510
PleI	GAGTC	2 cut(s)	302, 1142
PpsI	GAGTC	2 cut(s)	302, 1142
Psp6I	CCWGG	4 cut(s)	877, 964, 1042, 1614
PspGI	CCWGG	4 cut(s)	877, 964, 1042, 1614
PspN4I	GGNNCC	4 cut(s)	260, 399, 738, 1367
PspPI	GGNCC	3 cut(s)	203, 512, 736
PstI	CTGCAG	1 cut(s)	1391
RsaI	GTAC	5 cut(s)	260, 358, 562, 710, 1367
RsaNI	GTAC	5 cut(s)	259, 357, 561, 709, 1366
RseI	CAYNNNNRTG	1 cut(s)	945
SaqAI	TTAA	4 cut(s)	93, 465, 1274, 1482
SatI	GCNGC	5 cut(s)	899, 954, 1390, 1476, 1509
Sau3AI	GATC	3 cut(s)	421, 601, 661
Sau96I	GGNCC	3 cut(s)	203, 512, 736
SchI	GAGTC	2 cut(s)	303, 1142
ScrFI	CCNGG	4 cut(s)	879, 966, 1044, 1616
SfaNI	GCATC	5 cut(s)	258, 367, 965, 1183, 1234
SfcI	CTRYAG	1 cut(s)	1387
SfuI	TTCGAA	1 cut(s)	530
SinI	GGWCC	2 cut(s)	203, 736
SmiMI	CAYNNNNRTG	1 cut(s)	945
SmlI	CTYRAG	1 cut(s)	495
SmoI	CTYRAG	1 cut(s)	495
Sse9I	AATT	6 cut(s)	39, 50, 236, 1399, 1467, 1479
SsiI	CCGC	3 cut(s)	899, 1286, 1331
SspMI	CTAG	4 cut(s)	675, 1197, 1418, 1523
StyD4I	CCNGG	4 cut(s)	877, 964, 1042, 1614
TaaI	ACNGT	3 cut(s)	565, 887, 1353
TaqI	TCGA	2 cut(s)	530, 781
TasI	AATT	6 cut(s)	39, 50, 236, 1399, 1467, 1479
TatI	WGTACW	1 cut(s)	356
TauI	GCSGC	1 cut(s)	901
TfiI	GAWTC	4 cut(s)	520, 576, 874, 1141
Tru1I	TTAA	4 cut(s)	93, 465, 1274, 1482
Tru9I	TTAA	4 cut(s)	93, 465, 1274, 1482
TscAI	CASTG	6 cut(s)	431, 446, 1214, 1324, 1342, 1509
TseFI	GTSAC	3 cut(s)	278, 476, 881
TseI	GCWGC	4 cut(s)	953, 1389, 1475, 1508
Tsp45I	GTSAC	3 cut(s)	278, 476, 881
TspDTI	ATGAA	7 cut(s)	9, 99, 366, 478, 850, 1112, 1157
TspRI	CASTG	6 cut(s)	431, 446, 1214, 1324, 1342, 1509
Van91I	CCANNNNNTGG	1 cut(s)	1615
VpaK11BI	GGWCC	2 cut(s)	203, 736
XapI	RAATTY	3 cut(s)	39, 50, 236
XceI	RCATGY	2 cut(s)	305, 543
XspI	CTAG	4 cut(s)	675, 1197, 1418, 1523

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