Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0017437

Physical Location & Seq

Genomic Coordinates Reverse (-)

15644957 .. 15649980

Gene Structure 5024 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG102000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1179 bp

ATGCTATTGACTCCTCATTTCCTTCAAAGGTTCAGCAAAGGAATAGTATCTATCGACAATCATCCTCATAAGGATATCATTGCAACTGGTGGGATTGATGAAAAGGTTGTGATCTTTGATTTAGCGTCAAACAAAGTCCTATCTACTCTTCATGGTCATTCAGACCGGGTTACTAGTGTTAGATTTGTGAGTCGTGATGATCTGTTCGTAACTGGGTCGGCTGACAAGACTGTTTGCATATGGAAAGGCTCTGATGATGGGAAGTATAAGTGCAACCTCACTTTGGAGAATCATACAGCTGAGGTGCGAGCTGTTACTGTACATCCCACAAATAACTACTTCGTGACTGCTTCTCTTGATAACACATGGTGTTTTTGTGATATTTCCAATGGAGAATGTCTGAGACAGGTCAAGGATGATTCAGTGTCTCAAGGTTATACATCTGCGGCCTTTCATCCAGATGGTGTCTTACTTGGAGTAGGCACCTCGGATCTCAAAATTTGGGATGTAAAAAGTCAGAGGGTGGTGAAAAGTCTTTGTCAACATGTTGGGGAAGTAACTTCCATCTCCTTCTCTGAAAATGGCAACTTTTTTGCGACTGCCGCTAGTGATGGTGTTAGATTGTGGGATAAGCGCAACTTAAGGAAATTCATATGGAGTGATCTTGGTACACGAACAAGCTGTGTTGAATTCGACTTCAGTGGAAGTTACCTTGCAGCTGCAGGCTCCTATAATACGAGAGTCTTCCGAGCTACTAGACGGGAGTCAAAATGGGAGACCATCAAAACTTTCACTTCCCTGACAGGTGAACAAACTAGCGTCAAATTTGGCCCAGATGCCCGATATATTGCAGTAGGATCAACAGACGGAGAAGAAAACCTCTGCACTTACTGTGAACATACCATCGAATATGACCGTGGTAGCCATCCCGCTGCTGATGTTGGGGGTGTGATGGTTTCCATCTTTGAGAGGGAGTGGGCAGAAGATATGGAGTTGGACTATGATAGTGACTTCTCAGGGGAAGAATCGGAGTTGGTATATGTCACGAAAAAGAAGAAAAAAAATGATGATGACACGGAGATGGAAAAAGTTGGGACCAAAAAGGAGAAAGATCTCGTAGAGGTGGAGGTGGAGGTGGAGGTGGAGGTGGAATATGAGACGGATTTGCTTTACAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000209 GO:0000349 GO:0000375 GO:0000377 GO:0000393 GO:0000398 GO:0000974 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006464 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008380 GO:0009507 GO:0009536 GO:0009605 GO:0009607 GO:0009617 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0022607 GO:0022613 GO:0022618 GO:0030312 GO:0031461 GO:0031974 GO:0031981 GO:0032446 GO:0032991 GO:0034622 GO:0034641 GO:0036211 GO:0042221 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046686 GO:0050896 GO:0051704 GO:0051707 GO:0061630 GO:0061659 GO:0065003 GO:0070013 GO:0070534 GO:0070647 GO:0071006 GO:0071012 GO:0071704 GO:0071826 GO:0071840 GO:0071944 GO:0080008 GO:0090304 GO:0098542 GO:0140096 GO:1901360 GO:1901564 GO:1902494 GO:1990234 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 ko04120 map03040 map04120

Pfam Domains

Protein Families

Prp19 U-box WD40

Protein Analysis

392

Amino Acids

43.91

Weight (kDa)

4.96

Isoelectric Point (pI)

15.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR5	PF25175	8 - 158	3.5e-24	WDR5 beta-propeller domain
Beta-prop_WDR36-Utp21_1st	PF25171	8 - 122	8.9e-11	WDR36/Utp21 first beta-propeller
WD40_WDHD1_1st	PF24817	8 - 90	5.7e-10	WDHD1 first WD40 domain
WDR55	PF24796	11 - 81	2.3e-06	WDR55
Beta-prop_DCAF12	PF23760	12 - 111	2e-07	DDB1- and CUL4-associated factor 12 beta propeller
WD40_Prp19	PF24814	12 - 289	1.8e-85	Prp19 WD40 domain
WD40_CDC20-Fz	PF24807	12 - 141	4e-14	CDC20/Fizzy WD40 domain
Beta-prop_WDR3_1st	PF25173	12 - 164	5.4e-20	WDR3 first beta-propeller domain
Beta-prop_THOC3	PF25174	12 - 64	7.9e-06	THOC3 beta-propeller domain
Beta-prop_EML	PF23409	13 - 209	1.2e-09	Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_WDR3_2nd	PF25172	16 - 122	4.9e-12	WDR3 second beta-propeller domain
WD40_MABP1-WDR62_2nd	PF24782	21 - 82	9.4e-08	MABP1/WDR62 second WD40 domain
WD40_Gbeta	PF25391	26 - 164	1.5e-10	G protein beta WD-40 repeat protein
Beta-prop_IFT122_1st	PF23381	34 - 91	1e-05	IFT122 first beta-propeller
WD40	PF00400	45 - 81	5.3e-09	WD domain, G-beta repeat
Beta-prop_CAF1B_HIR1	PF24105	46 - 143	2.4e-08	CAF1B/HIR1 beta-propeller domain
EIF3I	PF24805	49 - 141	5.7e-10	EIF3I
Beta-prop_THOC3	PF25174	53 - 290	3.2e-35	THOC3 beta-propeller domain
WDR55	PF24796	55 - 206	3.4e-13	WDR55
Beta-prop_WDR5	PF25175	73 - 290	8.3e-24	WDR5 beta-propeller domain
Beta-prop_WDR36-Utp21_2nd	PF25168	96 - 249	9.6e-14	WDR36/Utp21 second beta-propeller domain
Beta-prop_EML_2	PF23414	103 - 205	6e-11	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR90_POC16_2nd	PF23393	107 - 206	2.6e-06	WDR90/POC16, second beta-propeller
WD40_WDHD1_1st	PF24817	147 - 291	2.1e-09	WDHD1 first WD40 domain
Beta-prop_WDR3_1st	PF25173	147 - 238	1.6e-08	WDR3 first beta-propeller domain
WD40_CDC20-Fz	PF24807	184 - 294	1e-07	CDC20/Fizzy WD40 domain
Beta-prop_EML_2	PF23414	197 - 299	3e-08	Echinoderm microtubule-associated protein second beta-propeller

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0017437)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr4g0402341 RchiOBHm_Chr4g0402351
rosa_laevigata	RLG00000009101
rosa_samantha	Rh4AG112100 Rh4BG104700 Rh4CG118900 Rh4DG101700 Rh4DG101800 Rh4DG101900 Rh4DG102000 Rh4DG102100 Rh4DG102500 Rh7DG037800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	482
AciI	CCGC	3 cut(s)	446, 603, 930
AclWI	GGATC	2 cut(s)	498, 865
AcsI	RAATTY	4 cut(s)	498, 647, 689, 824
AcuI	CTGAAG	1 cut(s)	682
AdeI	CACNNNGTG	1 cut(s)	369
AfaI	GTAC	2 cut(s)	321, 670
AfiI	CCNNNNNNNGG	1 cut(s)	283
AflII	CTTAAG	1 cut(s)	640
AflIII	ACRYGT	1 cut(s)	544
AgsI	TTSAA	2 cut(s)	26, 689
AhlI	ACTAGT	1 cut(s)	173
AluBI	AGCT	5 cut(s)	299, 311, 681, 719, 752
AluI	AGCT	5 cut(s)	299, 311, 681, 719, 752
Alw26I	GTCTC	4 cut(s)	397, 432, 770, 1151
AlwI	GGATC	2 cut(s)	498, 865
AoxI	GGCC	2 cut(s)	447, 829
ApeKI	GCWGC	3 cut(s)	716, 719, 932
ApoI	RAATTY	4 cut(s)	498, 647, 689, 824
AspLEI	GCGC	1 cut(s)	636
AspS9I	GGNCC	2 cut(s)	830, 1095
AsuC2I	CCSGG	1 cut(s)	167
AsuHPI	GGTGA	2 cut(s)	538, 818
AvaII	GGWCC	1 cut(s)	1095
BanI	GGYRCC	1 cut(s)	482
BbsI	GAAGAC	1 cut(s)	736
BbvCI	CCTCAGC	1 cut(s)	300
BbvI	GCAGC	3 cut(s)	706, 728, 919
BcnI	CCSGG	1 cut(s)	167
BcoDI	GTCTC	4 cut(s)	397, 432, 770, 1151
BcuI	ACTAGT	1 cut(s)	173
BfaI	CTAG	4 cut(s)	174, 606, 756, 816
BfmI	CTRYAG	1 cut(s)	720
BfrI	CTTAAG	1 cut(s)	640
BglII	AGATCT	1 cut(s)	1111
BisI	GCNGC	5 cut(s)	447, 603, 717, 720, 933
BlsI	GCNGC	5 cut(s)	448, 604, 718, 721, 934
Bme1390I	CCNGG	1 cut(s)	167
Bme18I	GGWCC	1 cut(s)	1095
BmgT120I	GGNCC	2 cut(s)	830, 1095
BmiI	GGNNCC	3 cut(s)	484, 727, 1096
BmrFI	CCNGG	1 cut(s)	167
BmrI	ACTGGG	1 cut(s)	222
BmsI	GCATC	1 cut(s)	826
BmuI	ACTGGG	1 cut(s)	222
BoxI	GACNNNNGTC	1 cut(s)	763
BpiI	GAAGAC	1 cut(s)	736
Bpu10I	CCTNAGC	1 cut(s)	300
BpuEI	CTTGAG	1 cut(s)	414
BpuMI	CCSGG	1 cut(s)	167
BsaI	GGTCTC	1 cut(s)	770
BsaJI	CCNNGG	2 cut(s)	486, 916
Bsc4I	CCNNNNNNNGG	1 cut(s)	283
Bse1I	ACTGG	2 cut(s)	91, 217
Bse3DI	GCAATG	1 cut(s)	78
BseDI	CCNNGG	2 cut(s)	486, 916
BseGI	GGATG	6 cut(s)	61, 322, 421, 454, 511, 925
BseLI	CCNNNNNNNGG	1 cut(s)	283
BseMI	GCAATG	1 cut(s)	78
BseMII	CTCAG	3 cut(s)	291, 392, 1029
BseNI	ACTGG	2 cut(s)	91, 217
BseXI	GCAGC	3 cut(s)	706, 728, 919
BsgI	GTGCAG	1 cut(s)	868
BshFI	GGCC	2 cut(s)	449, 831
BshNI	GGYRCC	1 cut(s)	482
BsiSI	CCGG	1 cut(s)	166
BslFI	GGGAC	1 cut(s)	1108
BslI	CCNNNNNNNGG	1 cut(s)	283
BsmAI	GTCTC	4 cut(s)	397, 432, 770, 1151
BsmBI	CGTCTC	1 cut(s)	1151
BsmFI	GGGAC	1 cut(s)	1108
BsnI	GGCC	2 cut(s)	449, 831
Bso31I	GGTCTC	1 cut(s)	770
Bsp1407I	TGTACA	1 cut(s)	319
Bsp143I	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
BspACI	CCGC	3 cut(s)	446, 603, 930
BspANI	GGCC	2 cut(s)	449, 831
BspCNI	CTCAG	3 cut(s)	292, 393, 1028
BspLI	GGNNCC	3 cut(s)	484, 727, 1096
BspMAI	CTGCAG	1 cut(s)	724
BspPI	GGATC	2 cut(s)	498, 865
BspT107I	GGYRCC	1 cut(s)	482
BspTI	CTTAAG	1 cut(s)	640
BspTNI	GGTCTC	1 cut(s)	770
BsrDI	GCAATG	1 cut(s)	78
BsrGI	TGTACA	1 cut(s)	319
BsrI	ACTGG	2 cut(s)	91, 217
BssECI	CCNNGG	2 cut(s)	486, 916
BssMI	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
Bst4CI	ACNGT	4 cut(s)	232, 319, 893, 917
Bst6I	CTCTTC	1 cut(s)	153
BstAFI	CTTAAG	1 cut(s)	640
BstAUI	TGTACA	1 cut(s)	319
BstC8I	GCNNGC	2 cut(s)	309, 724
BstDEI	CTNAG	3 cut(s)	300, 401, 1015
BstDSI	CCRYGG	1 cut(s)	916
BstF5I	GGATG	6 cut(s)	61, 322, 421, 454, 511, 925
BstHHI	GCGC	1 cut(s)	636
BstKTI	GATC	6 cut(s)	114, 202, 493, 664, 860, 1114
BstMAI	GTCTC	4 cut(s)	397, 432, 770, 1151
BstMBI	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
BstMWI	GCNNNNNNNGC	1 cut(s)	602
BstNSI	RCATGY	1 cut(s)	548
BstPAI	GACNNNNGTC	1 cut(s)	763
BstSCI	CCNGG	1 cut(s)	165
BstSFI	CTRYAG	1 cut(s)	720
BstV1I	GCAGC	3 cut(s)	706, 728, 919
BstV2I	GAAGAC	1 cut(s)	736
BstX2I	RGATCY	2 cut(s)	490, 1111
BstYI	RGATCY	2 cut(s)	490, 1111
BsuRI	GGCC	2 cut(s)	449, 831
BtgI	CCRYGG	1 cut(s)	916
BtsCI	GGATG	6 cut(s)	61, 322, 421, 454, 511, 925
BtsIMutI	CAGTG	2 cut(s)	429, 706
Cac8I	GCNNGC	2 cut(s)	309, 724
CfoI	GCGC	1 cut(s)	636
Cfr13I	GGNCC	2 cut(s)	830, 1095
CseI	GACGC	2 cut(s)	114, 808
Csp6I	GTAC	2 cut(s)	320, 669
CviAII	CATG	3 cut(s)	152, 366, 545
CviQI	GTAC	2 cut(s)	320, 669
DdeI	CTNAG	3 cut(s)	300, 401, 1015
DpnI	GATC	6 cut(s)	113, 201, 492, 663, 859, 1113
DpnII	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
DraIII	CACNNNGTG	1 cut(s)	369
Eam1104I	CTCTTC	1 cut(s)	153
EarI	CTCTTC	1 cut(s)	153
Eco31I	GGTCTC	1 cut(s)	770
Eco32I	GATATC	1 cut(s)	76
Eco47I	GGWCC	1 cut(s)	1095
Eco57I	CTGAAG	1 cut(s)	682
EcoRI	GAATTC	1 cut(s)	689
EcoRV	GATATC	1 cut(s)	76
Esp3I	CGTCTC	1 cut(s)	1151
FaeI	CATG	3 cut(s)	155, 369, 548
FalI	AAGNNNNNCTT	2 cut(s)	623, 655
FaqI	GGGAC	1 cut(s)	1108
FatI	CATG	3 cut(s)	151, 365, 544
FauI	CCCGC	1 cut(s)	937
FauNDI	CATATG	2 cut(s)	239, 653
Fnu4HI	GCNGC	5 cut(s)	447, 603, 717, 720, 933
FokI	GGATG	6 cut(s)	48, 309, 428, 441, 518, 912
Fsp4HI	GCNGC	5 cut(s)	447, 603, 717, 720, 933
FspBI	CTAG	4 cut(s)	174, 606, 756, 816
GlaI	GCGC	1 cut(s)	635
GluI	GCNGC	5 cut(s)	447, 603, 717, 720, 933
HaeIII	GGCC	2 cut(s)	449, 831
HapII	CCGG	1 cut(s)	166
HgaI	GACGC	2 cut(s)	114, 808
HhaI	GCGC	1 cut(s)	636
Hin1II	CATG	3 cut(s)	155, 369, 548
Hin6I	GCGC	1 cut(s)	634
HinP1I	GCGC	1 cut(s)	634
HincII	GTYRAC	1 cut(s)	542
HindII	GTYRAC	1 cut(s)	542
HinfI	GANTC	7 cut(s)	10, 190, 289, 419, 741, 764, 1025
HpaII	CCGG	1 cut(s)	166
HphI	GGTGA	2 cut(s)	538, 818
Hpy166II	GTNNAC	4 cut(s)	542, 671, 809, 896
Hpy188I	TCNGA	8 cut(s)	163, 253, 402, 490, 519, 577, 749, 1030
Hpy188III	TCNNGA	5 cut(s)	194, 343, 356, 458, 1045
Hpy8I	GTNNAC	4 cut(s)	542, 671, 809, 896
HpyAV	CCTTC	2 cut(s)	32, 580
HpyCH4III	ACNGT	4 cut(s)	232, 319, 893, 917
HpyCH4V	TGCA	7 cut(s)	83, 237, 273, 716, 722, 851, 885
HpyF10VI	GCNNNNNNNGC	1 cut(s)	602
HpyF3I	CTNAG	3 cut(s)	300, 401, 1015
Hsp92II	CATG	3 cut(s)	155, 369, 548
HspAI	GCGC	1 cut(s)	634
Kzo9I	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
LmnI	GCTCC	1 cut(s)	731
Lsp1109I	GCAGC	3 cut(s)	706, 728, 919
LweI	GCATC	1 cut(s)	826
MaeI	CTAG	4 cut(s)	174, 606, 756, 816
MaeIII	GTNAC	8 cut(s)	169, 208, 313, 343, 556, 707, 1007, 1042
MalI	GATC	6 cut(s)	113, 201, 492, 663, 859, 1113
MboI	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
MboII	GAAGA	6 cut(s)	140, 736, 884, 995, 1034, 1066
MfeI	CAATTG	1 cut(s)	1174
MflI	RGATCY	2 cut(s)	490, 1111
MluCI	AATT	5 cut(s)	498, 647, 689, 824, 1174
MlyI	GAGTC	4 cut(s)	4, 199, 750, 773
MmeI	TCCRAC	1 cut(s)	975
MseI	TTAA	1 cut(s)	641
MslI	CAYNNNNRTG	2 cut(s)	459, 1079
MspA1I	CMGCKG	3 cut(s)	299, 719, 932
MspCI	CTTAAG	1 cut(s)	640
MspI	CCGG	1 cut(s)	166
MspR9I	CCNGG	1 cut(s)	167
MunI	CAATTG	1 cut(s)	1174
MwoI	GCNNNNNNNGC	1 cut(s)	602
NciI	CCSGG	1 cut(s)	167
NdeI	CATATG	2 cut(s)	239, 653
NdeII	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
NlaIII	CATG	3 cut(s)	155, 369, 548
NlaIV	GGNNCC	3 cut(s)	484, 727, 1096
NmuCI	GTSAC	3 cut(s)	343, 1007, 1042
NspI	RCATGY	1 cut(s)	548
PciI	ACATGT	1 cut(s)	544
PfeI	GAWTC	3 cut(s)	289, 419, 1025
PkrI	GCNGC	5 cut(s)	448, 604, 718, 721, 934
PleI	GAGTC	4 cut(s)	4, 198, 749, 772
PpsI	GAGTC	4 cut(s)	4, 198, 749, 772
PscI	ACATGT	1 cut(s)	544
PshAI	GACNNNNGTC	1 cut(s)	763
PspN4I	GGNNCC	3 cut(s)	484, 727, 1096
PspPI	GGNCC	2 cut(s)	830, 1095
PstI	CTGCAG	1 cut(s)	724
PsuI	RGATCY	2 cut(s)	490, 1111
PvuII	CAGCTG	2 cut(s)	299, 719
RsaI	GTAC	2 cut(s)	321, 670
RsaNI	GTAC	2 cut(s)	320, 669
RseI	CAYNNNNRTG	2 cut(s)	459, 1079
SaqAI	TTAA	1 cut(s)	641
SatI	GCNGC	5 cut(s)	447, 603, 717, 720, 933
Sau3AI	GATC	6 cut(s)	111, 199, 490, 661, 857, 1111
Sau96I	GGNCC	2 cut(s)	830, 1095
SchI	GAGTC	4 cut(s)	4, 199, 750, 773
ScrFI	CCNGG	1 cut(s)	167
SfaNI	GCATC	1 cut(s)	826
SfcI	CTRYAG	1 cut(s)	720
SinI	GGWCC	1 cut(s)	1095
SmiMI	CAYNNNNRTG	2 cut(s)	459, 1079
SmlI	CTYRAG	2 cut(s)	429, 640
SmoI	CTYRAG	2 cut(s)	429, 640
SpeI	ACTAGT	1 cut(s)	173
Sse9I	AATT	5 cut(s)	498, 647, 689, 824, 1174
SsiI	CCGC	3 cut(s)	446, 603, 930
SspMI	CTAG	4 cut(s)	174, 606, 756, 816
StyD4I	CCNGG	1 cut(s)	165
TaaI	ACNGT	4 cut(s)	232, 319, 893, 917
TaqI	TCGA	3 cut(s)	54, 693, 906
TasI	AATT	5 cut(s)	498, 647, 689, 824, 1174
TatI	WGTACW	1 cut(s)	319
TauI	GCSGC	2 cut(s)	449, 605
TfiI	GAWTC	3 cut(s)	289, 419, 1025
Tru1I	TTAA	1 cut(s)	641
Tru9I	TTAA	1 cut(s)	641
TscAI	CASTG	2 cut(s)	429, 706
TseFI	GTSAC	3 cut(s)	343, 1007, 1042
TseI	GCWGC	3 cut(s)	716, 719, 932
Tsp45I	GTSAC	3 cut(s)	343, 1007, 1042
TspDTI	ATGAA	4 cut(s)	114, 140, 443, 640
TspGWI	ACGGA	3 cut(s)	882, 1091, 1175
TspRI	CASTG	2 cut(s)	429, 706
Vha464I	CTTAAG	1 cut(s)	640
VpaK11BI	GGWCC	1 cut(s)	1095
XapI	RAATTY	4 cut(s)	498, 647, 689, 824
XceI	RCATGY	1 cut(s)	548
XspI	CTAG	4 cut(s)	174, 606, 756, 816

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