Rorug01G0205200

Ycf20-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0008566
Physical Location & Seq
Forward (+)
28771436 .. 28773065
1630 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0205200.1

Sequence Viewer

Length: 1584 bp
ATGTGTGCTCGTTTTTGGTGGGGGAGTACTCTTGATAAGAGAAAGATTCATTGGAAAACTTGGAAGGCTTTGTGTAACCCAAAGGAGGAGGGTGGCCTAGGGTTTCGTAGTTTATCAAATTTTAATACTGCAATGTTGGCAAAACAAGCATGGTGTGTGGTGAACAATCCGAATTCTTTAGTGGCTCGGATCTATGAAGCAAAATATTATCCGGATACTACCTTTTGGTTAACTGAGGCTTATGCTTCTCCTTCTTTTTCTTGGCGAAGCCTATTTTCTACAAGAGAACTTTTGAGACAAAGTTCGTATTGGCAAATTGGTGATGGTTTGTCTGTTGATATTTGGTCAGATTCTTGGGTGCCTGGAGTCCCAGATTACAAGCCAGTTGATAATGGCATAGCTTCGTTGGAGGTTAGACAAGTTAGTGAGATGTTGAACCAAGCAGGGAGGTGGAATGAACTCTTGGTTAGACGAATGTTTCCAATGGAGGAAGGTGAGGCTATTATGAGTATACCTCTAAGTTCTAGAGTTGTTGAAGATCGAGTGGTGTGGAGAATGGAAAAGAATGGTAAGTTAACGGTTAAGTCAGCATACCGTCAGGATTTTTCTATGTCAAACTCTAGAAGTCCTTTTCAAGTTTCAGTGGGGGTTAACTTTTGGAAGAAGATTTGGAAGGTTGTCATCCCTAACTTTGCCAAGGTTCATATATGGAGGGTTTGCCATAATATCTTACCTTCTCTTGAGAGACTTGCGTCAAAAAGGGTGGTGTTGGAAACACAAATGTGTGTTCTTTGCTCTTCTGGATTGGAGTCCACGTTACATTTATGTCAGGATTGCTCATTCACAAAACAACTGCTTCAAACCAATGGGGTCTTATCTCAGGTGTGTTACAATCCTCATGCCGCTCACTTGGATATTCTAGGTTGGTTGAGTTTTTGTGTAGATGCACTTTCAGTTAAAGATTTGGGTGATTTGGTTTATCTCTTGTGGGGAATTTGGAAGGAAAGGAACTGTCGGATTTGGGATAATAAGAGTGTCACAACTTATGAAGTGCTTCTTATGTCCATGACTAGGCTGCATGCCTTTAGATTTCATAATTCAAAACCTCATATTGGAGGTACTGTGAGGATGTCACGTTGGTCTTCTCCTCATTTGGGATGGTACAAGATTAATGTGGATGTCAGGGATAACTTGGGCAACTTTCTTGCTGGGGGAGGTAGGCCATTGCAGGGGTTATTATGCCCGGAGCATGCTGAGGTGCTGGGCTGCAGATTGGCAGCGAATTTTGCTGTGGAGCAGGGGTTTGTTCCTGCTTTATTGGAGCTCGATGCTCAGGTGGTACAACGGCAATTATTGCAGCGAAGTGACCCTAATACTTCGGTGTTGGGGCGAATTTATGATGATCTCAGGTTATTTCTTGAGAGTCATCTAAACTTGAAGGTTCTATACGTGAATAGGAGCGCTAACAAAGTGGCTCACCTTATGGCAACACAAGCTAGTTCTGAAGCACAGGAACATTATTATTTTTCTTCTTCTCCTTCATTTTTGCTTGCTGCGTTAGCAGCAGATGCTAGTTCTATGTAA
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
DUF565

Protein Analysis

527

Amino Acids

60.06

Weight (kDa)

8.93

Isoelectric Point (pI)

44.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 193 - 285 4.4e-11 zinc-binding in reverse transcriptase
RVT_3 PF13456 394 - 499 2.6e-13 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 358
AccBSI CCGCTC 1 cut(s) 905
AccI GTMKAC 1 cut(s) 511
AccIII TCCGGA 1 cut(s) 211
AciI CCGC 1 cut(s) 903
AclWI GGATC 1 cut(s) 197
AcsI RAATTY 5 cut(s) 118, 172, 993, 1282, 1392
AcuI CTGAAG 1 cut(s) 1524
AfaI GTAC 4 cut(s) 28, 1120, 1163, 1341
AfeI AGCGCT 1 cut(s) 1462
AfiI CCNNNNNNNGG 5 cut(s) 85, 1071, 1112, 1154, 1229
AgsI TTSAA 6 cut(s) 436, 536, 635, 860, 1101, 1438
AjnI CCWGG 1 cut(s) 361
AjuI GAANNNNNNNTTGG 4 cut(s) 34, 66, 446, 478
AleI CACNNNNGTG 1 cut(s) 781
AluBI AGCT 3 cut(s) 401, 1324, 1496
AluI AGCT 3 cut(s) 401, 1324, 1496
Alw21I GWGCWC 2 cut(s) 10, 1326
Alw26I GTCTC 2 cut(s) 289, 739
AlwI GGATC 1 cut(s) 197
Aor13HI TCCGGA 1 cut(s) 211
Aor51HI AGCGCT 1 cut(s) 1462
AoxI GGCC 2 cut(s) 94, 1220
ApeKI GCWGC 6 cut(s) 1075, 1266, 1277, 1357, 1553, 1562
ApoI RAATTY 5 cut(s) 118, 172, 993, 1282, 1392
AseI ATTAAT 1 cut(s) 1170
Asp700I GAANNNNTTC 1 cut(s) 1053
AspA2I CCTAGG 1 cut(s) 97
AspLEI GCGC 1 cut(s) 1463
AsuC2I CCSGG 1 cut(s) 1244
AsuHPI GGTGA 5 cut(s) 172, 332, 506, 980, 1469
AvrII CCTAGG 1 cut(s) 97
BanI GGYRCC 1 cut(s) 358
BanII GRGCYC 1 cut(s) 1326
BarI GAAGNNNNNNTAC 2 cut(s) 1430, 1462
BbsI GAAGAC 1 cut(s) 1134
Bbv12I GWGCWC 2 cut(s) 10, 1326
BbvCI CCTCAGC 1 cut(s) 1254
BbvI GCAGC 6 cut(s) 1062, 1253, 1289, 1369, 1540, 1574
BccI CCATC 2 cut(s) 317, 1152
BceAI ACGGC 1 cut(s) 1361
BciT130I CCWGG 1 cut(s) 363
BciVI GTATCC 1 cut(s) 208
BcnI CCSGG 1 cut(s) 1244
BcoDI GTCTC 2 cut(s) 289, 739
BfaI CTAG 7 cut(s) 98, 525, 621, 920, 1071, 1497, 1572
BfmI CTRYAG 1 cut(s) 1267
BfoI RGCGCY 1 cut(s) 1464
BfuI GTATCC 1 cut(s) 208
BisI GCNGC 7 cut(s) 903, 1076, 1267, 1278, 1358, 1554, 1563
BlnI CCTAGG 1 cut(s) 97
BlsI GCNGC 7 cut(s) 904, 1077, 1268, 1279, 1359, 1555, 1564
BmcAI AGTACT 1 cut(s) 28
Bme1390I CCNGG 2 cut(s) 363, 1244
BmiI GGNNCC 1 cut(s) 360
BmrFI CCNGG 2 cut(s) 363, 1244
BmsI GCATC 3 cut(s) 934, 1318, 1558
BoxI GACNNNNGTC 1 cut(s) 751
BpiI GAAGAC 1 cut(s) 1134
BplI GAGNNNNNCTC 2 cut(s) 499, 531
BpmI CTGGAG 1 cut(s) 384
Bpu10I CCTNAGC 2 cut(s) 1254, 1332
BpuEI CTTGAG 2 cut(s) 761, 1439
BpuMI CCSGG 1 cut(s) 1244
BsaAI YACGTR 1 cut(s) 1450
BsaJI CCNNGG 2 cut(s) 97, 696
BsaWI WCCGGW 1 cut(s) 211
BsaXI ACNNNNNCTCC 6 cut(s) 800, 830, 1107, 1137, 1286, 1316
Bsc4I CCNNNNNNNGG 5 cut(s) 85, 1071, 1112, 1154, 1229
Bse1I ACTGG 1 cut(s) 383
Bse3DI GCAATG 2 cut(s) 138, 1223
BseAI TCCGGA 1 cut(s) 211
BseBI CCWGG 1 cut(s) 363
BseDI CCNNGG 2 cut(s) 97, 696
BseGI GGATG 4 cut(s) 681, 1134, 1163, 1183
BseLI CCNNNNNNNGG 5 cut(s) 85, 1071, 1112, 1154, 1229
BseMI GCAATG 2 cut(s) 138, 1223
BseMII CTCAG 5 cut(s) 225, 893, 1245, 1346, 1420
BseNI ACTGG 1 cut(s) 383
BseRI GAGGAG 2 cut(s) 101, 1137
BseXI GCAGC 6 cut(s) 1062, 1253, 1289, 1369, 1540, 1574
BseYI CCCAGC 2 cut(s) 1208, 1261
BshFI GGCC 2 cut(s) 96, 1222
BshNI GGYRCC 1 cut(s) 358
BsiHKAI GWGCWC 2 cut(s) 10, 1326
BsiSI CCGG 2 cut(s) 212, 1244
BslFI GGGAC 1 cut(s) 353
BslI CCNNNNNNNGG 5 cut(s) 85, 1071, 1112, 1154, 1229
BsmAI GTCTC 2 cut(s) 289, 739
BsmFI GGGAC 1 cut(s) 353
BsnI GGCC 2 cut(s) 96, 1222
Bsp1286I GDGCHC 2 cut(s) 10, 1326
Bsp13I TCCGGA 1 cut(s) 211
Bsp143I GATC 3 cut(s) 189, 538, 1402
BspACI CCGC 1 cut(s) 903
BspANI GGCC 2 cut(s) 96, 1222
BspCNI CTCAG 5 cut(s) 226, 892, 1246, 1345, 1419
BspEI TCCGGA 1 cut(s) 211
BspLI GGNNCC 1 cut(s) 360
BspMAI CTGCAG 1 cut(s) 1271
BspPI GGATC 1 cut(s) 197
BspQI GCTCTTC 1 cut(s) 802
BspT107I GGYRCC 1 cut(s) 358
BsrBI CCGCTC 1 cut(s) 905
BsrDI GCAATG 2 cut(s) 138, 1223
BsrI ACTGG 1 cut(s) 383
BssECI CCNNGG 2 cut(s) 97, 696
BssMI GATC 3 cut(s) 189, 538, 1402
BssNAI GTATAC 1 cut(s) 512
BssT1I CCWWGG 2 cut(s) 97, 696
Bst1107I GTATAC 1 cut(s) 512
Bst2UI CCWGG 1 cut(s) 363
Bst4CI ACNGT 4 cut(s) 580, 596, 1013, 1123
Bst6I CTCTTC 1 cut(s) 802
BstAPI GCANNNNNTGC 2 cut(s) 1354, 1568
BstBAI YACGTR 1 cut(s) 1450
BstC8I GCNNGC 3 cut(s) 1080, 1251, 1551
BstDEI CTNAG 6 cut(s) 234, 518, 879, 1254, 1332, 1406
BstF5I GGATG 4 cut(s) 681, 1134, 1163, 1183
BstH2I RGCGCY 1 cut(s) 1464
BstHHI GCGC 1 cut(s) 1463
BstKTI GATC 3 cut(s) 192, 541, 1405
BstMAI GTCTC 2 cut(s) 289, 739
BstMBI GATC 3 cut(s) 189, 538, 1402
BstMWI GCNNNNNNNGC 8 cut(s) 137, 146, 1286, 1354, 1493, 1559, 1562, 1568
BstNI CCWGG 1 cut(s) 363
BstNSI RCATGY 2 cut(s) 1082, 1253
BstPAI GACNNNNGTC 1 cut(s) 751
BstSCI CCNGG 2 cut(s) 361, 1242
BstSFI CTRYAG 1 cut(s) 1267
BstV1I GCAGC 6 cut(s) 1062, 1253, 1289, 1369, 1540, 1574
BstV2I GAAGAC 1 cut(s) 1134
BstX2I RGATCY 1 cut(s) 189
BstYI RGATCY 1 cut(s) 189
BstZ17I GTATAC 1 cut(s) 512
BsuI GTATCC 1 cut(s) 208
BsuRI GGCC 2 cut(s) 96, 1222
BtsCI GGATG 4 cut(s) 681, 1134, 1163, 1183
BtsIMutI CAGTG 1 cut(s) 648
Cac8I GCNNGC 3 cut(s) 1080, 1251, 1551
CfoI GCGC 1 cut(s) 1463
CseI GACGC 1 cut(s) 741
Csp6I GTAC 4 cut(s) 27, 1119, 1162, 1340
CspCI CAANNNNNGTGG 2 cut(s) 744, 779
CviAII CATG 5 cut(s) 150, 899, 1066, 1079, 1250
CviQI GTAC 4 cut(s) 27, 1119, 1162, 1340
DdeI CTNAG 6 cut(s) 234, 518, 879, 1254, 1332, 1406
DpnI GATC 3 cut(s) 191, 540, 1404
DpnII GATC 3 cut(s) 189, 538, 1402
Eam1104I CTCTTC 1 cut(s) 802
EarI CTCTTC 1 cut(s) 802
Ecl136II GAGCTC 1 cut(s) 1324
Eco130I CCWWGG 2 cut(s) 97, 696
Eco24I GRGCYC 1 cut(s) 1326
Eco47III AGCGCT 1 cut(s) 1462
Eco53kI GAGCTC 1 cut(s) 1324
Eco57I CTGAAG 1 cut(s) 1524
EcoICRI GAGCTC 1 cut(s) 1324
EcoRI GAATTC 1 cut(s) 172
EcoRII CCWGG 1 cut(s) 361
EcoT14I CCWWGG 2 cut(s) 97, 696
EcoT38I GRGCYC 1 cut(s) 1326
ErhI CCWWGG 2 cut(s) 97, 696
FaeI CATG 5 cut(s) 153, 902, 1069, 1082, 1253
FalI AAGNNNNNCTT 2 cut(s) 1041, 1073
FaqI GGGAC 1 cut(s) 353
FatI CATG 5 cut(s) 149, 898, 1065, 1078, 1249
FblI GTMKAC 1 cut(s) 511
Fnu4HI GCNGC 7 cut(s) 903, 1076, 1267, 1278, 1358, 1554, 1563
FokI GGATG 4 cut(s) 668, 1141, 1170, 1190
FriOI GRGCYC 1 cut(s) 1326
Fsp4HI GCNGC 7 cut(s) 903, 1076, 1267, 1278, 1358, 1554, 1563
FspBI CTAG 7 cut(s) 98, 525, 621, 920, 1071, 1497, 1572
GlaI GCGC 1 cut(s) 1462
GluI GCNGC 7 cut(s) 903, 1076, 1267, 1278, 1358, 1554, 1563
GsaI CCCAGC 2 cut(s) 1212, 1265
GsuI CTGGAG 1 cut(s) 384
HaeII RGCGCY 1 cut(s) 1464
HaeIII GGCC 2 cut(s) 96, 1222
HapII CCGG 2 cut(s) 212, 1244
HgaI GACGC 1 cut(s) 741
HhaI GCGC 1 cut(s) 1463
Hin1II CATG 5 cut(s) 153, 902, 1069, 1082, 1253
Hin6I GCGC 1 cut(s) 1461
HinP1I GCGC 1 cut(s) 1461
HincII GTYRAC 3 cut(s) 231, 576, 652
HindII GTYRAC 3 cut(s) 231, 576, 652
HinfI GANTC 5 cut(s) 46, 350, 366, 809, 1423
HpaI GTTAAC 3 cut(s) 231, 576, 652
HpaII CCGG 2 cut(s) 212, 1244
HphI GGTGA 5 cut(s) 172, 332, 506, 980, 1469
Hpy166II GTNNAC 6 cut(s) 163, 231, 512, 576, 652, 813
Hpy188I TCNGA 5 cut(s) 171, 189, 349, 1017, 1504
Hpy188III TCNNGA 9 cut(s) 32, 212, 525, 599, 621, 740, 801, 830, 1418
Hpy8I GTNNAC 6 cut(s) 163, 231, 512, 576, 652, 813
HpyAV CCTTC 8 cut(s) 58, 261, 485, 667, 744, 994, 1432, 1548
HpyCH4III ACNGT 4 cut(s) 580, 596, 1013, 1123
HpyCH4IV ACGT 3 cut(s) 815, 1135, 1449
HpyCH4V TGCA 6 cut(s) 131, 947, 1078, 1228, 1269, 1357
HpyF10VI GCNNNNNNNGC 8 cut(s) 137, 146, 1286, 1354, 1493, 1559, 1562, 1568
HpyF3I CTNAG 6 cut(s) 234, 518, 879, 1254, 1332, 1406
HpySE526I ACGT 3 cut(s) 815, 1135, 1449
Hsp92II CATG 5 cut(s) 153, 902, 1069, 1082, 1253
HspAI GCGC 1 cut(s) 1461
Kpn2I TCCGGA 1 cut(s) 211
KspAI GTTAAC 3 cut(s) 231, 576, 652
Kzo9I GATC 3 cut(s) 189, 538, 1402
LguI GCTCTTC 1 cut(s) 802
LmnI GCTCC 4 cut(s) 1246, 1294, 1321, 1458
Lsp1109I GCAGC 6 cut(s) 1062, 1253, 1289, 1369, 1540, 1574
LweI GCATC 3 cut(s) 934, 1318, 1558
MaeI CTAG 7 cut(s) 98, 525, 621, 920, 1071, 1497, 1572
MaeII ACGT 3 cut(s) 815, 1135, 1449
MaeIII GTNAC 6 cut(s) 74, 816, 887, 1036, 1131, 1364
MalI GATC 3 cut(s) 191, 540, 1404
MbiI CCGCTC 1 cut(s) 905
MboI GATC 3 cut(s) 189, 538, 1402
MboII GAAGA 7 cut(s) 548, 673, 676, 789, 1134, 1521, 1524
MflI RGATCY 1 cut(s) 189
MhlI GDGCHC 2 cut(s) 10, 1326
MluCI AATT 8 cut(s) 118, 172, 315, 993, 1096, 1282, 1349, 1392
MlyI GAGTC 3 cut(s) 375, 818, 1432
MmeI TCCRAC 3 cut(s) 387, 750, 995
MroI TCCGGA 1 cut(s) 211
MroXI GAANNNNTTC 1 cut(s) 1053
MseI TTAA 7 cut(s) 123, 230, 575, 582, 651, 957, 1170
MslI CAYNNNNRTG 1 cut(s) 781
MspI CCGG 2 cut(s) 212, 1244
MspR9I CCNGG 2 cut(s) 363, 1244
MvaI CCWGG 1 cut(s) 363
MwoI GCNNNNNNNGC 8 cut(s) 137, 146, 1286, 1354, 1493, 1559, 1562, 1568
NciI CCSGG 1 cut(s) 1244
NdeII GATC 3 cut(s) 189, 538, 1402
NlaIII CATG 5 cut(s) 153, 902, 1069, 1082, 1253
NlaIV GGNNCC 1 cut(s) 360
NmuCI GTSAC 3 cut(s) 1036, 1131, 1364
NspI RCATGY 2 cut(s) 1082, 1253
OliI CACNNNNGTG 1 cut(s) 781
PaeI GCATGC 2 cut(s) 1082, 1253
PciSI GCTCTTC 1 cut(s) 802
PdmI GAANNNNTTC 1 cut(s) 1053
PfeI GAWTC 2 cut(s) 46, 350
PkrI GCNGC 7 cut(s) 904, 1077, 1268, 1279, 1359, 1555, 1564
PleI GAGTC 3 cut(s) 374, 817, 1431
PpsI GAGTC 3 cut(s) 374, 817, 1431
Ppu21I YACGTR 1 cut(s) 1450
PshAI GACNNNNGTC 1 cut(s) 751
PshBI ATTAAT 1 cut(s) 1170
Psp124BI GAGCTC 1 cut(s) 1326
Psp6I CCWGG 1 cut(s) 361
PspFI CCCAGC 2 cut(s) 1208, 1261
PspGI CCWGG 1 cut(s) 361
PspN4I GGNNCC 1 cut(s) 360
PstI CTGCAG 1 cut(s) 1271
PsuI RGATCY 1 cut(s) 189
RsaI GTAC 4 cut(s) 28, 1120, 1163, 1341
RsaNI GTAC 4 cut(s) 27, 1119, 1162, 1340
RseI CAYNNNNRTG 1 cut(s) 781
SacI GAGCTC 1 cut(s) 1326
SapI GCTCTTC 1 cut(s) 802
SaqAI TTAA 7 cut(s) 123, 230, 575, 582, 651, 957, 1170
SatI GCNGC 7 cut(s) 903, 1076, 1267, 1278, 1358, 1554, 1563
Sau3AI GATC 3 cut(s) 189, 538, 1402
ScaI AGTACT 1 cut(s) 28
SchI GAGTC 3 cut(s) 375, 818, 1432
ScrFI CCNGG 2 cut(s) 363, 1244
SduI GDGCHC 2 cut(s) 10, 1326
SfaNI GCATC 3 cut(s) 934, 1318, 1558
SfcI CTRYAG 1 cut(s) 1267
SmiMI CAYNNNNRTG 1 cut(s) 781
SmlI CTYRAG 2 cut(s) 740, 1418
SmoI CTYRAG 2 cut(s) 740, 1418
SphI GCATGC 2 cut(s) 1082, 1253
Sse9I AATT 8 cut(s) 118, 172, 315, 993, 1096, 1282, 1349, 1392
SsiI CCGC 1 cut(s) 903
SspI AATATT 1 cut(s) 206
SspMI CTAG 7 cut(s) 98, 525, 621, 920, 1071, 1497, 1572
SstI GAGCTC 1 cut(s) 1326
StyD4I CCNGG 2 cut(s) 361, 1242
StyI CCWWGG 2 cut(s) 97, 696
TaaI ACNGT 4 cut(s) 580, 596, 1013, 1123
TaiI ACGT 3 cut(s) 818, 1138, 1452
TaqI TCGA 2 cut(s) 541, 1326
TasI AATT 8 cut(s) 118, 172, 315, 993, 1096, 1282, 1349, 1392
TatI WGTACW 1 cut(s) 26
TauI GCSGC 1 cut(s) 905
TfiI GAWTC 2 cut(s) 46, 350
Tru1I TTAA 7 cut(s) 123, 230, 575, 582, 651, 957, 1170
Tru9I TTAA 7 cut(s) 123, 230, 575, 582, 651, 957, 1170
TscAI CASTG 1 cut(s) 648
TseFI GTSAC 3 cut(s) 1036, 1131, 1364
TseI GCWGC 6 cut(s) 1075, 1266, 1277, 1357, 1553, 1562
Tsp45I GTSAC 3 cut(s) 1036, 1131, 1364
TspDTI ATGAA 7 cut(s) 38, 210, 471, 692, 1062, 1082, 1530
TspRI CASTG 1 cut(s) 648
VspI ATTAAT 1 cut(s) 1170
XapI RAATTY 5 cut(s) 118, 172, 993, 1282, 1392
XbaI TCTAGA 2 cut(s) 524, 620
XceI RCATGY 2 cut(s) 1082, 1253
XmaJI CCTAGG 1 cut(s) 97
XmiI GTMKAC 1 cut(s) 511
XmnI GAANNNNTTC 1 cut(s) 1053
XspI CTAG 7 cut(s) 98, 525, 621, 920, 1071, 1497, 1572
ZrmI AGTACT 1 cut(s) 28
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.