Rh3AG273800

NYN domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0011904
Physical Location & Seq
Reverse (-)
31370417 .. 31374990
4574 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG273800.1

Sequence Viewer

Length: 1653 bp
ATGCTTTTCTGGGCAGTAGATAACCCTGCTCCTTGCAATTATCTGCTTATTTCCGGAGACAGGGACTTCTCTAATGCTCTGCACCAGTTACGCATGAGAAGATATAATATCCTTCTCGCACAGCCACAAAAAGCATCCGCACCCCTCATTGCTGCAGCAAAGAGTGTGTGGCTTTGGACAAGCCTCTCGGCTGGAGGCCCCCCACTTACGAGTGGTGAATCGTCTCTGCTTGCTAATGGTAGCAATTCCTTTAAGCCAGACCCGCCGCAGCAGTCGATGCTTGAAAATCATCAGACAAACCAATCGATACCTCACTTTGACAATCAAGCTGGGGGAAATCAGAAGCCTTCTAACGGTGGAAGGGGTGGTGATCCTAAGCAAAAAGGGAGGGTTAACAGGAAAAATCAAAATCAACCCAACATATCAAGAGCCTCAAGTGTGCCAGTTGGGGTCCAAGATGACAAGAATAATGATTATTCTTACCAAACAGATCAGACGCAGGCAAAGCAGTTTAAGAAAGCTCCACACGAATTCTTTGGTGCTAGTGAGAATCTTGTTTCCACTAGCAGGTCTACGCCCAATTTCTTCCCTGGAAATTCTGTCCCTTCTGGAAGTAATGGAAACAGTTTTCTAGGTCAGCAAAACCAATATCCTCCTCATTTGAGGCCGAACAACCTCCATATGCCACCTAATTTTGGACTGGATAATATGCACCCTCTGAATTCTCATAATCATGGTTTTCGACCTATTCCTCCCAGACCTGATGGCCCTCGATTTTCTTCAGCTCCACCTACAAATGTGCCTGACATGGGTAAGCTAAATATCTCTGATTACCCCAATTATGCTCAAAACCCACCCAGGTTTCCACATCGAACTGGAGAAGAGTATAATAGACCAAGGTCTAGTGAGTCAAAGAATTTTAGCAGCTCTAATGGACCCCAAAAAGGCCATAATATGCAGGGGGGTGGCCAGCCGTTTCATCATGATTCCATGAACAACAGGTATCCTCGTGGTTCTGAATATCTTCCTCCTTCTTCCCCCCCCATTACAGCAAACGACATTCCCAGTAATGGTATCTGGGGAAGTCAAGGTTGTGCACCACCTTCTGAACATGTTCAAGGCCTTATTGGCGTTATTCTACTAGCCCTGAACTCCTTGAAAGTAGAGAAAATTATGCCTACTGAAGCAAACATTACTGATTGCATCCGTTATGGTGATCCAAAACACCGAAATACCGATGTAAGGAAGGCCTTGGATTATGCAATAGAGCAACATATGGTAGTGAAGCAGAACCTGGGTGTTGCACTTCCAATGTATATTGGCAAAAAGCAAAAATTATGGAAGTGTGTGAATCTTATAGGCGGTAATCTTAATCACTACTCTAAAGCTACATGGGAGAAGTTACAGAATTTTCTGAGTTCATCAGATGGACGATCGGCAATAATGGCTTCTCAATGCAAATACGAAGCAGCTACAATTTTGAAAAAAAATTGCTTGCAAGAGCTTGCTTTGGGTGAGGTACTCCAGATCTTGAATATGTCAATTGCTATGAAGAAATGGATCATTCATCATCAGTCAGGATGGCAACCAATTTCTATTACCCTTCCAGAGACTAAACCTGAAGTAGCTTCCGAATCTGGTACTTGGGTTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
NYN OHA

Protein Analysis

550

Amino Acids

60.68

Weight (kDa)

9.37

Isoelectric Point (pI)

48.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NYN PF01936 1 - 54 4.6e-08 NYN domain
DUF7625 PF24620 362 - 456 3.7e-46 Domain of unknown function (DUF7625)
OHA PF14418 484 - 534 4.6e-11 OST-HTH Associated domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0011904)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G62200
fragaria_vesca FvH4_1g26400 FvH4_1g26400 FvH4_1g26400
malus_domestica MD09G1292400.v1.1 MD17G1283700.v1.1
prunus_persica Prupe.3G003800_v2.0.a1
pyrus_communis pycom09g19710 pycom17g27960
rosa_chinensis RchiOBHm_Chr3g0486181
rosa_laevigata RLG00000023095
rosa_multiflora Rmu_sc0000372.1_g000001
rosa_roxburghii Rroxscaffold_6G00396010
rosa_rugosa Rorug03G0223900
rosa_samantha Rh3AG273800 Rh3BG309100 Rh3CG307300 Rh3DG303700
rosa_wichuraiana Rw3G024260

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 558
AccI GTMKAC 1 cut(s) 572
AccIII TCCGGA 1 cut(s) 53
AciI CCGC 4 cut(s) 138, 263, 266, 1362
AclWI GGATC 3 cut(s) 365, 1211, 1568
AcoI YGGCCR 1 cut(s) 967
AcsI RAATTY 5 cut(s) 530, 595, 721, 916, 1408
AcuI CTGAAG 3 cut(s) 765, 1203, 1641
AfaI GTAC 2 cut(s) 1521, 1642
AfiI CCNNNNNNNGG 8 cut(s) 60, 353, 567, 695, 809, 944, 1070, 1242
AflIII ACRYGT 1 cut(s) 1111
AgsI TTSAA 5 cut(s) 284, 1118, 1159, 1483, 1534
AjnI CCWGG 3 cut(s) 589, 857, 1293
AluBI AGCT 9 cut(s) 329, 521, 785, 817, 927, 1388, 1472, 1504, 1628
AluI AGCT 9 cut(s) 329, 521, 785, 817, 927, 1388, 1472, 1504, 1628
Alw21I GWGCWC 1 cut(s) 1099
Alw26I GTCTC 3 cut(s) 51, 228, 1604
Alw44I GTGCAC 1 cut(s) 1095
AlwI GGATC 3 cut(s) 365, 1211, 1568
AlwNI CAGNNNCTG 1 cut(s) 1294
Aor13HI TCCGGA 1 cut(s) 53
AoxI GGCC 7 cut(s) 196, 665, 766, 946, 967, 1120, 1248
ApaLI GTGCAC 1 cut(s) 1095
ApeKI GCWGC 5 cut(s) 152, 155, 268, 924, 1469
ApoI RAATTY 5 cut(s) 530, 595, 721, 916, 1408
Asp700I GAANNNNTTC 2 cut(s) 1023, 1113
AspS9I GGNCC 4 cut(s) 197, 451, 767, 935
AsuHPI GGTGA 4 cut(s) 227, 380, 1226, 1526
AvaII GGWCC 2 cut(s) 451, 935
BaeGI GKGCMC 1 cut(s) 1099
BaeI ACNNNNGTAYC 1 cut(s) 1632
BalI TGGCCA 1 cut(s) 969
BauI CACGAG 1 cut(s) 1008
Bbv12I GWGCWC 1 cut(s) 1099
BbvI GCAGC 5 cut(s) 139, 167, 280, 936, 1481
BccI CCATC 3 cut(s) 758, 1421, 1575
BceAI ACGGC 1 cut(s) 958
BciT130I CCWGG 3 cut(s) 591, 859, 1295
BciVI GTATCC 1 cut(s) 1014
BcoDI GTCTC 3 cut(s) 51, 228, 1604
BfaI CTAG 5 cut(s) 543, 564, 632, 903, 1142
BfmI CTRYAG 1 cut(s) 153
BfuAI ACCTGC 1 cut(s) 558
BfuI GTATCC 1 cut(s) 1014
BglI GCCNNNNNGGC 1 cut(s) 1128
BglII AGATCT 1 cut(s) 1527
BisI GCNGC 6 cut(s) 153, 156, 266, 269, 925, 1470
BlsI GCNGC 6 cut(s) 154, 157, 267, 270, 926, 1471
Bme1390I CCNGG 3 cut(s) 591, 859, 1295
Bme18I GGWCC 2 cut(s) 451, 935
BmgT120I GGNCC 4 cut(s) 197, 451, 767, 935
BmiI GGNNCC 3 cut(s) 199, 452, 937
BmrFI CCNGG 3 cut(s) 591, 859, 1295
BmrI ACTGGG 1 cut(s) 1059
BmsI GCATC 3 cut(s) 143, 267, 1212
BmuI ACTGGG 1 cut(s) 1059
BoxI GACNNNNGTC 1 cut(s) 898
BpmI CTGGAG 3 cut(s) 213, 897, 1508
Bpu10I CCTNAGC 1 cut(s) 375
BpuEI CTTGAG 1 cut(s) 418
Bsa29I ATCGAT 1 cut(s) 305
BsaJI CCNNGG 5 cut(s) 589, 857, 896, 1251, 1294
BsaWI WCCGGW 1 cut(s) 53
Bsc4I CCNNNNNNNGG 8 cut(s) 60, 353, 567, 695, 809, 944, 1070, 1242
Bse1I ACTGG 5 cut(s) 85, 443, 705, 880, 1065
Bse3DI GCAATG 1 cut(s) 147
BseAI TCCGGA 1 cut(s) 53
BseBI CCWGG 3 cut(s) 591, 859, 1295
BseCI ATCGAT 1 cut(s) 305
BseDI CCNNGG 5 cut(s) 589, 857, 896, 1251, 1294
BseGI GGATG 3 cut(s) 134, 1203, 1586
BseLI CCNNNNNNNGG 8 cut(s) 60, 353, 567, 695, 809, 944, 1070, 1242
BseMI GCAATG 1 cut(s) 147
BseMII CTCAG 1 cut(s) 1406
BseNI ACTGG 5 cut(s) 85, 443, 705, 880, 1065
BseRI GAGGAG 1 cut(s) 645
BseSI GKGCMC 1 cut(s) 1099
BseXI GCAGC 5 cut(s) 139, 167, 280, 936, 1481
BseYI CCCAGC 1 cut(s) 329
BsgI GTGCAG 1 cut(s) 65
Bsh1285I CGRYCG 1 cut(s) 1436
BshFI GGCC 7 cut(s) 198, 667, 768, 948, 969, 1122, 1250
BshVI ATCGAT 1 cut(s) 305
BsiEI CGRYCG 1 cut(s) 1436
BsiHKAI GWGCWC 1 cut(s) 1099
BsiSI CCGG 1 cut(s) 54
BslFI GGGAC 2 cut(s) 77, 587
BslI CCNNNNNNNGG 8 cut(s) 60, 353, 567, 695, 809, 944, 1070, 1242
BsmAI GTCTC 3 cut(s) 51, 228, 1604
BsmBI CGTCTC 1 cut(s) 228
BsmFI GGGAC 2 cut(s) 77, 587
BsnI GGCC 7 cut(s) 198, 667, 768, 948, 969, 1122, 1250
Bsp1286I GDGCHC 1 cut(s) 1099
Bsp13I TCCGGA 1 cut(s) 53
Bsp143I GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
BspACI CCGC 4 cut(s) 138, 263, 266, 1362
BspANI GGCC 7 cut(s) 198, 667, 768, 948, 969, 1122, 1250
BspCNI CTCAG 1 cut(s) 1407
BspDI ATCGAT 1 cut(s) 305
BspEI TCCGGA 1 cut(s) 53
BspHI TCATGA 1 cut(s) 982
BspLI GGNNCC 3 cut(s) 199, 452, 937
BspMAI CTGCAG 1 cut(s) 157
BspMI ACCTGC 1 cut(s) 558
BspPI GGATC 3 cut(s) 365, 1211, 1568
BsrDI GCAATG 1 cut(s) 147
BsrI ACTGG 5 cut(s) 85, 443, 705, 880, 1065
BssECI CCNNGG 5 cut(s) 589, 857, 896, 1251, 1294
BssMI GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
BssSI CACGAG 1 cut(s) 1008
BssT1I CCWWGG 2 cut(s) 896, 1251
Bst2BI CACGAG 1 cut(s) 1008
Bst2UI CCWGG 3 cut(s) 591, 859, 1295
Bst4CI ACNGT 2 cut(s) 356, 626
Bst6I CTCTTC 1 cut(s) 876
BstAPI GCANNNNNTGC 1 cut(s) 277
BstC8I GCNNGC 5 cut(s) 231, 501, 971, 1496, 1506
BstDEI CTNAG 2 cut(s) 375, 1415
BstF5I GGATG 3 cut(s) 134, 1203, 1586
BstKTI GATC 6 cut(s) 373, 493, 1219, 1436, 1530, 1563
BstMAI GTCTC 3 cut(s) 51, 228, 1604
BstMBI GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
BstMCI CGRYCG 1 cut(s) 1436
BstMWI GCNNNNNNNGC 5 cut(s) 262, 277, 505, 1128, 1445
BstNI CCWGG 3 cut(s) 591, 859, 1295
BstNSI RCATGY 1 cut(s) 1115
BstPAI GACNNNNGTC 1 cut(s) 898
BstSCI CCNGG 3 cut(s) 589, 857, 1293
BstSFI CTRYAG 1 cut(s) 153
BstSLI GKGCMC 1 cut(s) 1099
BstV1I GCAGC 5 cut(s) 139, 167, 280, 936, 1481
BstX2I RGATCY 1 cut(s) 1527
BstYI RGATCY 1 cut(s) 1527
Bsu15I ATCGAT 1 cut(s) 305
BsuI GTATCC 1 cut(s) 1014
BsuRI GGCC 7 cut(s) 198, 667, 768, 948, 969, 1122, 1250
BsuTUI ATCGAT 1 cut(s) 305
BtsCI GGATG 3 cut(s) 134, 1203, 1586
BveI ACCTGC 1 cut(s) 558
Cac8I GCNNGC 5 cut(s) 231, 501, 971, 1496, 1506
CaiI CAGNNNCTG 1 cut(s) 1294
CciI TCATGA 1 cut(s) 982
Cfr13I GGNCC 4 cut(s) 197, 451, 767, 935
ClaI ATCGAT 1 cut(s) 305
CseI GACGC 1 cut(s) 505
Csp6I GTAC 2 cut(s) 1520, 1641
CviAII CATG 7 cut(s) 94, 734, 808, 983, 991, 1112, 1392
CviQI GTAC 2 cut(s) 1520, 1641
DdeI CTNAG 2 cut(s) 375, 1415
DpnI GATC 6 cut(s) 372, 492, 1218, 1435, 1529, 1562
DpnII GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
EaeI YGGCCR 1 cut(s) 967
Eam1104I CTCTTC 1 cut(s) 876
EarI CTCTTC 1 cut(s) 876
Eco130I CCWWGG 2 cut(s) 896, 1251
Eco147I AGGCCT 2 cut(s) 1122, 1250
Eco47I GGWCC 2 cut(s) 451, 935
Eco57I CTGAAG 3 cut(s) 765, 1203, 1641
EcoO109I RGGNCCY 1 cut(s) 197
EcoRI GAATTC 2 cut(s) 530, 721
EcoRII CCWGG 3 cut(s) 589, 857, 1293
EcoT14I CCWWGG 2 cut(s) 896, 1251
ErhI CCWWGG 2 cut(s) 896, 1251
Esp3I CGTCTC 1 cut(s) 228
FaeI CATG 7 cut(s) 97, 737, 811, 986, 994, 1115, 1395
FaqI GGGAC 2 cut(s) 77, 587
FatI CATG 7 cut(s) 93, 733, 807, 982, 990, 1111, 1391
FauI CCCGC 1 cut(s) 270
FauNDI CATATG 2 cut(s) 681, 1275
FblI GTMKAC 1 cut(s) 572
Fnu4HI GCNGC 6 cut(s) 153, 156, 266, 269, 925, 1470
FokI GGATG 3 cut(s) 121, 1190, 1593
Fsp4HI GCNGC 6 cut(s) 153, 156, 266, 269, 925, 1470
FspBI CTAG 5 cut(s) 543, 564, 632, 903, 1142
GluI GCNGC 6 cut(s) 153, 156, 266, 269, 925, 1470
GsaI CCCAGC 1 cut(s) 333
GsuI CTGGAG 3 cut(s) 213, 897, 1508
HaeIII GGCC 7 cut(s) 198, 667, 768, 948, 969, 1122, 1250
HapII CCGG 1 cut(s) 54
HgaI GACGC 1 cut(s) 505
Hin1II CATG 7 cut(s) 97, 737, 811, 986, 994, 1115, 1395
HincII GTYRAC 1 cut(s) 394
HindII GTYRAC 1 cut(s) 394
HinfI GANTC 6 cut(s) 218, 550, 908, 986, 1351, 1634
HpaI GTTAAC 1 cut(s) 394
HpaII CCGG 1 cut(s) 54
HphI GGTGA 4 cut(s) 227, 380, 1226, 1526
Hpy166II GTNNAC 3 cut(s) 394, 573, 1097
Hpy188III TCNNGA 8 cut(s) 54, 426, 609, 983, 1525, 1531, 1578, 1607
Hpy8I GTNNAC 3 cut(s) 394, 573, 1097
HpyAV CCTTC 8 cut(s) 122, 354, 357, 615, 1041, 1113, 1240, 1613
HpyCH4III ACNGT 2 cut(s) 356, 626
HpyF10VI GCNNNNNNNGC 5 cut(s) 262, 277, 505, 1128, 1445
HpyF3I CTNAG 2 cut(s) 375, 1415
Hsp92II CATG 7 cut(s) 97, 737, 811, 986, 994, 1115, 1395
Kpn2I TCCGGA 1 cut(s) 53
KspAI GTTAAC 1 cut(s) 394
Kzo9I GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
LmnI GCTCC 3 cut(s) 34, 526, 790
Lsp1109I GCAGC 5 cut(s) 139, 167, 280, 936, 1481
LweI GCATC 3 cut(s) 143, 267, 1212
MaeI CTAG 5 cut(s) 543, 564, 632, 903, 1142
MaeIII GTNAC 2 cut(s) 87, 1401
MalI GATC 6 cut(s) 372, 492, 1218, 1435, 1529, 1562
MboI GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
MboII GAAGA 7 cut(s) 111, 577, 771, 893, 1016, 1026, 1564
MfeI CAATTG 1 cut(s) 1542
MflI RGATCY 1 cut(s) 1527
MhlI GDGCHC 1 cut(s) 1099
MlsI TGGCCA 1 cut(s) 969
MluNI TGGCCA 1 cut(s) 969
MlyI GAGTC 1 cut(s) 917
Mox20I TGGCCA 1 cut(s) 969
MroI TCCGGA 1 cut(s) 53
MroXI GAANNNNTTC 2 cut(s) 1023, 1113
MscI TGGCCA 1 cut(s) 969
MseI TTAA 5 cut(s) 252, 393, 513, 1371, 1651
MslI CAYNNNNRTG 1 cut(s) 732
Msp20I TGGCCA 1 cut(s) 969
MspI CCGG 1 cut(s) 54
MspR9I CCNGG 3 cut(s) 591, 859, 1295
MunI CAATTG 1 cut(s) 1542
MvaI CCWGG 3 cut(s) 591, 859, 1295
MwoI GCNNNNNNNGC 5 cut(s) 262, 277, 505, 1128, 1445
NdeI CATATG 2 cut(s) 681, 1275
NdeII GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
NlaIII CATG 7 cut(s) 97, 737, 811, 986, 994, 1115, 1395
NlaIV GGNNCC 3 cut(s) 199, 452, 937
NmeAIII GCCGAG 1 cut(s) 167
NspI RCATGY 1 cut(s) 1115
PagI TCATGA 1 cut(s) 982
PceI AGGCCT 2 cut(s) 1122, 1250
PciI ACATGT 1 cut(s) 1111
PdmI GAANNNNTTC 2 cut(s) 1023, 1113
PfeI GAWTC 5 cut(s) 218, 550, 986, 1351, 1634
PkrI GCNGC 6 cut(s) 154, 157, 267, 270, 926, 1471
Ple19I CGATCG 1 cut(s) 1436
PleI GAGTC 1 cut(s) 916
PpsI GAGTC 1 cut(s) 916
PscI ACATGT 1 cut(s) 1111
PshAI GACNNNNGTC 1 cut(s) 898
Psp6I CCWGG 3 cut(s) 589, 857, 1293
PspFI CCCAGC 1 cut(s) 329
PspGI CCWGG 3 cut(s) 589, 857, 1293
PspN4I GGNNCC 3 cut(s) 199, 452, 937
PspPI GGNCC 4 cut(s) 197, 451, 767, 935
PstI CTGCAG 1 cut(s) 157
PstNI CAGNNNCTG 1 cut(s) 1294
PsuI RGATCY 1 cut(s) 1527
PvuI CGATCG 1 cut(s) 1436
RsaI GTAC 2 cut(s) 1521, 1642
RsaNI GTAC 2 cut(s) 1520, 1641
RseI CAYNNNNRTG 1 cut(s) 732
SaqAI TTAA 5 cut(s) 252, 393, 513, 1371, 1651
SatI GCNGC 6 cut(s) 153, 156, 266, 269, 925, 1470
Sau3AI GATC 6 cut(s) 370, 490, 1216, 1433, 1527, 1560
Sau96I GGNCC 4 cut(s) 197, 451, 767, 935
SchI GAGTC 1 cut(s) 917
ScrFI CCNGG 3 cut(s) 591, 859, 1295
SduI GDGCHC 1 cut(s) 1099
SfaNI GCATC 3 cut(s) 143, 267, 1212
SfcI CTRYAG 1 cut(s) 153
SinI GGWCC 2 cut(s) 451, 935
SmiMI CAYNNNNRTG 1 cut(s) 732
SmlI CTYRAG 1 cut(s) 433
SmoI CTYRAG 1 cut(s) 433
SseBI AGGCCT 2 cut(s) 1122, 1250
SsiI CCGC 4 cut(s) 138, 263, 266, 1362
SspMI CTAG 5 cut(s) 543, 564, 632, 903, 1142
StuI AGGCCT 2 cut(s) 1122, 1250
StyD4I CCNGG 3 cut(s) 589, 857, 1293
StyI CCWWGG 2 cut(s) 896, 1251
TaaI ACNGT 2 cut(s) 356, 626
TaqI TCGA 5 cut(s) 275, 305, 742, 772, 871
TauI GCSGC 1 cut(s) 268
TfiI GAWTC 5 cut(s) 218, 550, 986, 1351, 1634
Tru1I TTAA 5 cut(s) 252, 393, 513, 1371, 1651
Tru9I TTAA 5 cut(s) 252, 393, 513, 1371, 1651
TseI GCWGC 5 cut(s) 152, 155, 268, 924, 1469
TspDTI ATGAA 5 cut(s) 968, 1007, 1410, 1556, 1565
TspGWI ACGGA 1 cut(s) 1196
VneI GTGCAC 1 cut(s) 1095
VpaK11BI GGWCC 2 cut(s) 451, 935
XapI RAATTY 5 cut(s) 530, 595, 721, 916, 1408
XceI RCATGY 1 cut(s) 1115
XmiI GTMKAC 1 cut(s) 572
XmnI GAANNNNTTC 2 cut(s) 1023, 1113
XspI CTAG 5 cut(s) 543, 564, 632, 903, 1142
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.