Rroxscaffold_2G00153950

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0009592
Physical Location & Seq
Forward (+)
90662802 .. 90664674
1873 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00153950.1

Sequence Viewer

Length: 1356 bp
ATGGGTGTAGTGTTGAGCAACGGAACGTCTATGGTAGCGATGCGAAGACACGGCGACACTTCCAATACCCGTCAGCGGCGGCGGAGCCGCCAAGAACACCGCCAAACGCGGCAAGCAGAAGAAAAAGAACCACCACACTCCGCCGCTCGATCAACGAAGCCTCCTCAGCCTCGTCACCTCCGCCACCTCACTCGCCCACTCCTTCCTCTCCCAAAACGACCTCCTCCTCCTCCCCTCCCAAACCCTAACCCTAGAAACCCTCCTCTCCTCCGCCTCCTCCGCCCTCTCCCCCTCCTCCTCCTCTCATCTCCGCCGCCTCCGCAACCACCGCCGCCTCCTCCTCAAGAATGCTGGTTCCGCCGCTTCCTCTCCTCCCCCGCCGGCGACTCGCCGTGGCGCCACGCTTTCCGCATGTCCGAACACTCGTTCTCTATCCTTCTCTCCATCCTCTCCCCATTTCTGACCTCCGCAATCCCTTCGATTCCGCCTAACTACACCCTCGCCGCCGCGATTTACCGCCTCGCCCACGGCGCCACCTACAAGGCGGTCGGCCGGCGCTTTGGGATGGACTCGGCGGAGGCCTGCCGGGCTTTCTACGCCGTCTGCAAGTCGGTCAATGATAAATTAGGGAGCTTGTTTGAGCTCCGGTCCGATATGGCTCGGATTGTTGGGGGCTTCGGGTGGATTTCGCTGCCGAATTGCTGTGGGGTGTTAGGGTTTGGGAGATTTGGGGTTAGTGGTGAAATGCTGGGGCCAAATGGGTCGCTGTTGGTTCAGGCATTGGTGGATTCTGAAGGGAGGTTTCTGGATGTTTCGGCTGGCTGGCCGAGCACAGTGAACCCGGAAGCGATTTTCCGGCAGAGTAAGCTGTATTTGGGTGTGGAGGAGTCCAGGGAGTTGTTGAATGGTCCTGTTTATGAGCTCAGTGATGGCAATGCGCTTCCTCAGTACATATTGGGGGACTCTTGCTTTCCTCTGTTGCCTTGGCTTTTGACTCCGTATGTGAGATCAAATGAGGAAGAGGAGAGTTTCGGTACATTGGAGAAGGCGTTTAACTCGGCGCATAGTTGCGCAATGGGGCTGGTTGGGACGGCATTTGCGAGGGTGAGGGCTCGGTGGCAGCTGCTGAGTAGGGAGTGGAAGGAAGAGTGTGTGGAGTTTTTGCCGTTTGTGGTGGTTACTGGCTGTCTGCTGAATAATTTTCTGATGAAGTGTAGTGAGCCGCTGCCGGATGACAATGTGGGGTGCTTGAGGGAGGAGGAGCTTCAGGTGTTCGAAGGACAGGTGGACGAGAGTGGCGAGAGGATTAGGGATGTGCTTGCCACGCACTTGAGCCGGGTAAGCCTAAGAAGATGA
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
DDE_Tnp_4

Protein Analysis

451

Amino Acids

50.3

Weight (kDa)

8.98

Isoelectric Point (pI)

68.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_4 PF13359 255 - 400 6.7e-16 DDE superfamily endonuclease
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 1072
AccB1I GGYRCC 2 cut(s) 396, 530
AccBSI CCGCTC 1 cut(s) 146
AccII CGCG 2 cut(s) 109, 509
AcoI YGGCCR 2 cut(s) 550, 824
AcuI CTGAAG 2 cut(s) 813, 1250
AcyI GRCGYC 2 cut(s) 397, 531
AfaI GTAC 2 cut(s) 950, 1036
AfiI CCNNNNNNNGG 1 cut(s) 75
AgsI TTSAA 1 cut(s) 904
AjnI CCWGG 1 cut(s) 890
AluBI AGCT 6 cut(s) 633, 643, 868, 922, 1123, 1264
AluI AGCT 6 cut(s) 633, 643, 868, 922, 1123, 1264
Alw21I GWGCWC 3 cut(s) 645, 833, 924
AlwNI CAGNNNCTG 1 cut(s) 1126
AoxI GGCC 4 cut(s) 550, 579, 752, 824
ApeKI GCWGC 4 cut(s) 691, 1120, 1123, 1225
AspLEI GCGC 6 cut(s) 399, 533, 558, 940, 1063, 1073
AspS9I GGNCC 3 cut(s) 648, 752, 908
AsuC2I CCSGG 3 cut(s) 587, 842, 1337
AsuHPI GGTGA 3 cut(s) 167, 752, 1117
AsuII TTCGAA 1 cut(s) 1275
AvaII GGWCC 2 cut(s) 648, 908
BanI GGYRCC 2 cut(s) 396, 530
BanII GRGCYC 3 cut(s) 645, 924, 1114
BbsI GAAGAC 1 cut(s) 52
Bbv12I GWGCWC 3 cut(s) 645, 833, 924
BbvCI CCTCAGC 1 cut(s) 165
BbvI GCAGC 4 cut(s) 678, 1110, 1132, 1212
BccI CCATC 3 cut(s) 452, 559, 923
BceAI ACGGC 6 cut(s) 67, 376, 544, 584, 1107, 1150
BcgI CGANNNNNNTGC 2 cut(s) 459, 493
BciT130I CCWGG 1 cut(s) 892
BcnI CCSGG 3 cut(s) 587, 842, 1337
BfaI CTAG 1 cut(s) 252
BfoI RGCGCY 3 cut(s) 400, 534, 559
BglI GCCNNNNNGGC 1 cut(s) 587
Bme1390I CCNGG 4 cut(s) 587, 842, 892, 1337
Bme18I GGWCC 2 cut(s) 648, 908
BmgT120I GGNCC 3 cut(s) 648, 752, 908
BmiI GGNNCC 5 cut(s) 86, 356, 398, 532, 753
BmrFI CCNGG 4 cut(s) 587, 842, 892, 1337
BmsI GCATC 1 cut(s) 30
BpiI GAAGAC 1 cut(s) 52
Bpu10I CCTNAGC 1 cut(s) 165
Bpu14I TTCGAA 1 cut(s) 1275
BpuEI CTTGAG 3 cut(s) 327, 1270, 1351
BpuMI CCSGG 3 cut(s) 587, 842, 1337
BsaHI GRCGYC 2 cut(s) 397, 531
BsaJI CCNNGG 4 cut(s) 392, 526, 891, 983
BsaWI WCCGGW 1 cut(s) 645
BsaXI ACNNNNNCTCC 4 cut(s) 145, 175, 1034, 1064
Bsc4I CCNNNNNNNGG 1 cut(s) 75
Bse118I RCCGGY 2 cut(s) 380, 552
Bse1I ACTGG 1 cut(s) 1186
Bse3DI GCAATG 2 cut(s) 940, 1080
BseBI CCWGG 1 cut(s) 892
BseDI CCNNGG 4 cut(s) 392, 526, 891, 983
BseGI GGATG 5 cut(s) 444, 570, 814, 1237, 1318
BseLI CCNNNNNNNGG 1 cut(s) 75
BseMI GCAATG 2 cut(s) 940, 1080
BseMII CTCAG 4 cut(s) 179, 937, 959, 1118
BseNI ACTGG 1 cut(s) 1186
BseX3I CGGCCG 1 cut(s) 550
BseXI GCAGC 4 cut(s) 678, 1110, 1132, 1212
BseYI CCCAGC 1 cut(s) 748
Bsh1236I CGCG 2 cut(s) 109, 509
Bsh1285I CGRYCG 2 cut(s) 549, 553
BshFI GGCC 4 cut(s) 552, 581, 754, 826
BshNI GGYRCC 2 cut(s) 396, 530
BsiEI CGRYCG 2 cut(s) 549, 553
BsiHKAI GWGCWC 3 cut(s) 645, 833, 924
BsiSI CCGG 8 cut(s) 381, 553, 586, 646, 842, 856, 1229, 1336
BslFI GGGAC 2 cut(s) 974, 1102
BslI CCNNNNNNNGG 1 cut(s) 75
BsmFI GGGAC 2 cut(s) 974, 1102
BsmI GAATGC 1 cut(s) 353
BsnI GGCC 4 cut(s) 552, 581, 754, 826
Bsp119I TTCGAA 1 cut(s) 1275
Bsp1286I GDGCHC 4 cut(s) 645, 833, 924, 1114
Bsp143I GATC 2 cut(s) 149, 1007
BspANI GGCC 4 cut(s) 552, 581, 754, 826
BspCNI CTCAG 4 cut(s) 178, 936, 958, 1119
BspFNI CGCG 2 cut(s) 109, 509
BspLI GGNNCC 5 cut(s) 86, 356, 398, 532, 753
BspT104I TTCGAA 1 cut(s) 1275
BspT107I GGYRCC 2 cut(s) 396, 530
BsrBI CCGCTC 1 cut(s) 146
BsrDI GCAATG 2 cut(s) 940, 1080
BsrFI RCCGGY 2 cut(s) 380, 552
BsrI ACTGG 1 cut(s) 1186
BssAI RCCGGY 2 cut(s) 380, 552
BssECI CCNNGG 4 cut(s) 392, 526, 891, 983
BssMI GATC 2 cut(s) 149, 1007
BssNI GRCGYC 2 cut(s) 397, 531
BssT1I CCWWGG 1 cut(s) 983
Bst2UI CCWGG 1 cut(s) 892
Bst4CI ACNGT 1 cut(s) 835
Bst6I CTCTTC 2 cut(s) 1014, 1140
BstACI GRCGYC 2 cut(s) 397, 531
BstBI TTCGAA 1 cut(s) 1275
BstC8I GCNNGC 7 cut(s) 114, 382, 554, 583, 820, 824, 1320
BstDEI CTNAG 5 cut(s) 165, 923, 945, 1127, 1346
BstDSI CCRYGG 2 cut(s) 392, 526
BstF5I GGATG 5 cut(s) 444, 570, 814, 1237, 1318
BstFNI CGCG 2 cut(s) 109, 509
BstH2I RGCGCY 3 cut(s) 400, 534, 559
BstHHI GCGC 6 cut(s) 399, 533, 558, 940, 1063, 1073
BstKTI GATC 2 cut(s) 152, 1010
BstMBI GATC 2 cut(s) 149, 1007
BstMCI CGRYCG 2 cut(s) 549, 553
BstNI CCWGG 1 cut(s) 892
BstNSI RCATGY 1 cut(s) 415
BstSCI CCNGG 4 cut(s) 585, 840, 890, 1335
BstUI CGCG 2 cut(s) 109, 509
BstV1I GCAGC 4 cut(s) 678, 1110, 1132, 1212
BstV2I GAAGAC 1 cut(s) 52
BstZI CGGCCG 1 cut(s) 550
BsuRI GGCC 4 cut(s) 552, 581, 754, 826
BtgI CCRYGG 2 cut(s) 392, 526
BtgZI GCGATG 1 cut(s) 53
BtsCI GGATG 5 cut(s) 444, 570, 814, 1237, 1318
BtsIMutI CAGTG 2 cut(s) 840, 931
Cac8I GCNNGC 7 cut(s) 114, 382, 554, 583, 820, 824, 1320
CaiI CAGNNNCTG 1 cut(s) 1126
CfoI GCGC 6 cut(s) 399, 533, 558, 940, 1063, 1073
Cfr10I RCCGGY 2 cut(s) 380, 552
Cfr13I GGNCC 3 cut(s) 648, 752, 908
CpoI CGGWCCG 1 cut(s) 648
Csp6I GTAC 2 cut(s) 949, 1035
CspI CGGWCCG 1 cut(s) 648
CviAII CATG 1 cut(s) 412
CviQI GTAC 2 cut(s) 949, 1035
DdeI CTNAG 5 cut(s) 165, 923, 945, 1127, 1346
DinI GGCGCC 2 cut(s) 398, 532
DpnI GATC 2 cut(s) 151, 1009
DpnII GATC 2 cut(s) 149, 1007
EaeI YGGCCR 2 cut(s) 550, 824
EagI CGGCCG 1 cut(s) 550
Eam1104I CTCTTC 2 cut(s) 1014, 1140
EarI CTCTTC 2 cut(s) 1014, 1140
EciI GGCGGA 9 cut(s) 97, 130, 170, 260, 269, 300, 347, 474, 590
Ecl136II GAGCTC 2 cut(s) 643, 922
EclXI CGGCCG 1 cut(s) 550
Eco130I CCWWGG 1 cut(s) 983
Eco147I AGGCCT 1 cut(s) 581
Eco24I GRGCYC 3 cut(s) 645, 924, 1114
Eco47I GGWCC 2 cut(s) 648, 908
Eco52I CGGCCG 1 cut(s) 550
Eco53kI GAGCTC 2 cut(s) 643, 922
Eco57I CTGAAG 2 cut(s) 813, 1250
EcoICRI GAGCTC 2 cut(s) 643, 922
EcoRII CCWGG 1 cut(s) 890
EcoT14I CCWWGG 1 cut(s) 983
EcoT38I GRGCYC 3 cut(s) 645, 924, 1114
EgeI GGCGCC 2 cut(s) 398, 532
EheI GGCGCC 2 cut(s) 398, 532
ErhI CCWWGG 1 cut(s) 983
FaeI CATG 1 cut(s) 415
FaiI YATR 7 cut(s) 32, 413, 656, 918, 953, 1002, 1065
FaqI GGGAC 2 cut(s) 974, 1102
FatI CATG 1 cut(s) 411
FauI CCCGC 1 cut(s) 385
FokI GGATG 5 cut(s) 431, 577, 821, 1244, 1325
FriOI GRGCYC 3 cut(s) 645, 924, 1114
FspBI CTAG 1 cut(s) 252
FspI TGCGCA 1 cut(s) 1072
GlaI GCGC 6 cut(s) 398, 532, 557, 939, 1062, 1072
GsaI CCCAGC 1 cut(s) 752
HaeII RGCGCY 3 cut(s) 400, 534, 559
HaeIII GGCC 4 cut(s) 552, 581, 754, 826
HapII CCGG 8 cut(s) 381, 553, 586, 646, 842, 856, 1229, 1336
HhaI GCGC 6 cut(s) 399, 533, 558, 940, 1063, 1073
Hin1I GRCGYC 2 cut(s) 397, 531
Hin1II CATG 1 cut(s) 415
Hin6I GCGC 6 cut(s) 397, 531, 556, 938, 1061, 1071
HinP1I GCGC 6 cut(s) 397, 531, 556, 938, 1061, 1071
HinfI GANTC 7 cut(s) 386, 481, 569, 788, 887, 962, 994
HpaII CCGG 8 cut(s) 381, 553, 586, 646, 842, 856, 1229, 1336
HphI GGTGA 3 cut(s) 167, 752, 1117
Hpy166II GTNNAC 2 cut(s) 838, 1288
Hpy188I TCNGA 6 cut(s) 418, 462, 652, 663, 793, 1206
Hpy188III TCNNGA 2 cut(s) 344, 806
Hpy8I GTNNAC 2 cut(s) 838, 1288
HpyAV CCTTC 7 cut(s) 212, 446, 486, 788, 1039, 1135, 1271
HpyCH4III ACNGT 1 cut(s) 835
HpyCH4IV ACGT 1 cut(s) 26
HpyCH4V TGCA 1 cut(s) 606
HpyF3I CTNAG 5 cut(s) 165, 923, 945, 1127, 1346
HpySE526I ACGT 1 cut(s) 26
Hsp92I GRCGYC 2 cut(s) 397, 531
Hsp92II CATG 1 cut(s) 415
HspAI GCGC 6 cut(s) 397, 531, 556, 938, 1061, 1071
KasI GGCGCC 2 cut(s) 396, 530
KroI GCCGGC 2 cut(s) 380, 552
KroNI GCCGGC 2 cut(s) 382, 554
Kzo9I GATC 2 cut(s) 149, 1007
LmnI GCTCC 4 cut(s) 84, 630, 648, 1261
Lsp1109I GCAGC 4 cut(s) 678, 1110, 1132, 1212
LweI GCATC 1 cut(s) 30
MaeI CTAG 1 cut(s) 252
MaeII ACGT 1 cut(s) 26
MaeIII GTNAC 2 cut(s) 173, 1177
MalI GATC 2 cut(s) 151, 1009
MbiI CCGCTC 1 cut(s) 146
MboI GATC 2 cut(s) 149, 1007
MboII GAAGA 4 cut(s) 57, 131, 1031, 1157
MhlI GDGCHC 4 cut(s) 645, 833, 924, 1114
MluCI AATT 3 cut(s) 623, 697, 1198
Mly113I GGCGCC 2 cut(s) 397, 531
MlyI GAGTC 5 cut(s) 380, 563, 896, 956, 988
MreI CGCCGGCG 1 cut(s) 380
MroNI GCCGGC 2 cut(s) 380, 552
MseI TTAA 1 cut(s) 1053
MspA1I CMGCKG 3 cut(s) 76, 1123, 1225
MspI CCGG 8 cut(s) 381, 553, 586, 646, 842, 856, 1229, 1336
MspR9I CCNGG 4 cut(s) 587, 842, 892, 1337
Mva1269I GAATGC 1 cut(s) 353
MvaI CCWGG 1 cut(s) 892
MvnI CGCG 2 cut(s) 109, 509
NaeI GCCGGC 2 cut(s) 382, 554
NarI GGCGCC 2 cut(s) 397, 531
NciI CCSGG 3 cut(s) 587, 842, 1337
NdeII GATC 2 cut(s) 149, 1007
NgoMIV GCCGGC 2 cut(s) 380, 552
NlaIII CATG 1 cut(s) 415
NlaIV GGNNCC 5 cut(s) 86, 356, 398, 532, 753
NmeAIII GCCGAG 3 cut(s) 551, 852, 1037
NmuCI GTSAC 1 cut(s) 173
NsbI TGCGCA 1 cut(s) 1072
NspI RCATGY 1 cut(s) 415
NspV TTCGAA 1 cut(s) 1275
PceI AGGCCT 1 cut(s) 581
PcsI WCGNNNNNNNCGW 2 cut(s) 1097, 1296
PctI GAATGC 1 cut(s) 353
PdiI GCCGGC 2 cut(s) 382, 554
PfeI GAWTC 2 cut(s) 481, 788
PleI GAGTC 5 cut(s) 380, 563, 895, 956, 988
PluTI GGCGCC 2 cut(s) 400, 534
PpsI GAGTC 5 cut(s) 380, 563, 895, 956, 988
Psp124BI GAGCTC 2 cut(s) 645, 924
Psp6I CCWGG 1 cut(s) 890
PspFI CCCAGC 1 cut(s) 748
PspGI CCWGG 1 cut(s) 890
PspN4I GGNNCC 5 cut(s) 86, 356, 398, 532, 753
PspPI GGNCC 3 cut(s) 648, 752, 908
PstNI CAGNNNCTG 1 cut(s) 1126
PvuII CAGCTG 1 cut(s) 1123
RsaI GTAC 2 cut(s) 950, 1036
RsaNI GTAC 2 cut(s) 949, 1035
Rsr2I CGGWCCG 1 cut(s) 648
RsrII CGGWCCG 1 cut(s) 648
SacI GAGCTC 2 cut(s) 645, 924
SaqAI TTAA 1 cut(s) 1053
Sau3AI GATC 2 cut(s) 149, 1007
Sau96I GGNCC 3 cut(s) 648, 752, 908
SchI GAGTC 5 cut(s) 380, 563, 896, 956, 988
ScrFI CCNGG 4 cut(s) 587, 842, 892, 1337
SduI GDGCHC 4 cut(s) 645, 833, 924, 1114
SfaNI GCATC 1 cut(s) 30
SfoI GGCGCC 2 cut(s) 398, 532
SfuI TTCGAA 1 cut(s) 1275
SgrAI CRCCGGYG 1 cut(s) 380
SinI GGWCC 2 cut(s) 648, 908
SmlI CTYRAG 3 cut(s) 342, 1249, 1330
SmoI CTYRAG 3 cut(s) 342, 1249, 1330
Sse9I AATT 3 cut(s) 623, 697, 1198
SseBI AGGCCT 1 cut(s) 581
SspDI GGCGCC 2 cut(s) 396, 530
SspMI CTAG 1 cut(s) 252
SstI GAGCTC 2 cut(s) 645, 924
StuI AGGCCT 1 cut(s) 581
StyD4I CCNGG 4 cut(s) 585, 840, 890, 1335
StyI CCWWGG 1 cut(s) 983
TaaI ACNGT 1 cut(s) 835
TaiI ACGT 1 cut(s) 29
TaqI TCGA 3 cut(s) 148, 479, 1275
TaqII GACCGA 1 cut(s) 601
TasI AATT 3 cut(s) 623, 697, 1198
TatI WGTACW 1 cut(s) 948
TfiI GAWTC 2 cut(s) 481, 788
Tru1I TTAA 1 cut(s) 1053
Tru9I TTAA 1 cut(s) 1053
TscAI CASTG 2 cut(s) 840, 931
TseFI GTSAC 1 cut(s) 173
TseI GCWGC 4 cut(s) 691, 1120, 1123, 1225
Tsp45I GTSAC 1 cut(s) 173
TspDTI ATGAA 1 cut(s) 1223
TspGWI ACGGA 2 cut(s) 36, 987
TspRI CASTG 2 cut(s) 840, 931
VpaK11BI GGWCC 2 cut(s) 648, 908
XceI RCATGY 1 cut(s) 415
XspI CTAG 1 cut(s) 252
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.