pycom11g05030

tRNA pseudouridine

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr11
OG0007446
Physical Location & Seq
Reverse (-)
3912133 .. 3914874
2742 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1587 bp
ATGGCCGTCTCCTCACTGCGACTCCCCTTCTCCCTCTGCCTCCCAAAGTTCCCATCTCGCACCTTCCATTTTTCAAAGCCAATTTTACCCCTCAGACTCAACCTTATTTACTGCTGCTCCTCCTCCTCCCTCTATACGCCCGAACAAACCTCAACCAGCTCCGGTCACAAATGGCAGTCCGTCCGAAAGAGGAAAGTGGTTCTCCGGGTCGGGTACGTCGGCACCGAGTACCGAGGCTTGCAAATGCAACGAGACGAAAATTCATTATCCACTATTGAGAAAGAGTTGGAAACTGCCATATACAACGCGGGCGGTATCCGTGAGAGTAATCTGGGGAACCTTAACAAGATTGCGTGGGCCAGGAGTAGCCGGACTGATAAAGGAGTTCACTCTTTAGCAACGATGATATCATTGAAAATGGAAATCCCAGAGAATGCATGGGTCGGAGACCCTTTTGGCATGGATCTTGTGAATCACATTAACTCTTATCTGCCTCGTAATATCAAAGTTTTCAGCATTTTGCCTGCGCAGAGGAGCTTTGATCCTAGAAAGGAGTGTAATCTCCGCATGTATTCATACCTCCTTCCTGCTGAGGTTATTGGAATCAAAAGTCACTTCAACGCAGATGAAATTGATTATCACATCTCAGACTTCAATAATATACTAAAAGCTTTCGAGGGAGAACATCCTTTTCATAATTATACTATACGATCTAAATACAGGTCGAAGTATCCTGCAAAACAATCACCCAAACATGGAAAAGTGTTGATAGCAGGTAGATCAACCAGAGAGGCAACAGCCTCTGAGTCTGAGTCTGAGGAAAGTGACAGGGAAGAATATTTTGATGAAACATATGCATCAGAATCAAATTCTGAGGAACTGAACCAAATTTCTTCGTTTTCTAGCAATAGTGAGGACAGCTTACTCGATGCTTGCAAGAAGCAGGGAGATGTTCTAAAGGTTCAAAGTGCTGGTTCGGTCATCCGTGCAAGATGGTTATTTGAACCTGATGAAGGAGATAGAATTGGTGCTTCTCATTTCAGAAAGATTTTTCAGTGCTCTTGTGGGAAGCTGGAGAAATCGCTTGGACATGATTATGTTGAAGTTTCCATATGGGGAGAATCTTTCATGTTACATCAAATCCGCAAAATGGTTGGAACTGCTGTGGCTATAAAGCGCGAGTTACTCCCTAGAGATATTTTGACAATGTCACTGGCCAAGTTTTCCCGGATAGTCCTACCACTTGCCCCATCTGAAGTTTTGTTTTTAAGAGGGAACAGGTTTTCAATTAGAGTAAAAAATGTAACAAGGCCTGAAATGACGACAATGGTTGAATCAGAAGAAATAAATAAGGCGGTTGACGAGTTCTTCATATCTGTTATGTTGCCTCAAGTTACAAAGTTCTTAGATCCTTCAGGATATCCTTGGAATGAATGGGTTGAGAATTTGGATAGAAACACAGGCATTCCAGATGCAGAATTGGATGAAGTCAGGAACGCTTGGAAAGTGTGGAGGGAAAAGTTTGACGGTTTTGCATCAGTCCGAAACCAAAGAGACAAGGTAGATGCCGATGATTGCAATGGATAA

Protein Analysis

529

Amino Acids

60.22

Weight (kDa)

7.19

Isoelectric Point (pI)

50.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_1 PF01416 344 - 423 1.5e-06 tRNA pseudouridine synthase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 528
Acc36I ACCTGC 1 cut(s) 764
AccB1I GGYRCC 1 cut(s) 221
AccII CGCG 2 cut(s) 308, 1179
AciI CCGC 5 cut(s) 308, 312, 565, 1144, 1355
AclWI GGATC 3 cut(s) 471, 536, 1403
AcoI YGGCCR 2 cut(s) 3, 1215
AcsI RAATTY 4 cut(s) 259, 868, 888, 1444
AcuI CTGAAG 2 cut(s) 1275, 1398
AfaI GTAC 2 cut(s) 215, 230
AfiI CCNNNNNNNGG 3 cut(s) 755, 1013, 1150
AgsI TTSAA 9 cut(s) 75, 415, 619, 655, 965, 1004, 1103, 1287, 1334
AjnI CCWGG 1 cut(s) 359
AluBI AGCT 5 cut(s) 159, 537, 671, 921, 1072
AluI AGCT 5 cut(s) 159, 537, 671, 921, 1072
Alw21I GWGCWC 1 cut(s) 1061
Alw26I GTCTC 4 cut(s) 13, 246, 441, 1548
AlwI GGATC 3 cut(s) 471, 536, 1403
AlwNI CAGNNNCTG 1 cut(s) 803
AoxI GGCC 4 cut(s) 3, 357, 1215, 1310
ApeKI GCWGC 1 cut(s) 114
ApoI RAATTY 4 cut(s) 259, 868, 888, 1444
AspLEI GCGC 2 cut(s) 529, 1179
AspS9I GGNCC 1 cut(s) 357
AsuC2I CCSGG 2 cut(s) 206, 1228
AsuHPI GGTGA 1 cut(s) 738
BalI TGGCCA 1 cut(s) 1217
BanI GGYRCC 1 cut(s) 221
Bbv12I GWGCWC 1 cut(s) 1061
BbvCI CCTCAGC 1 cut(s) 591
BbvI GCAGC 1 cut(s) 101
BccI CCATC 3 cut(s) 61, 987, 1258
BciT130I CCWGG 1 cut(s) 361
BciVI GTATCC 2 cut(s) 326, 741
BcnI CCSGG 2 cut(s) 206, 1228
BcoDI GTCTC 4 cut(s) 13, 246, 441, 1548
BfaI CTAG 3 cut(s) 546, 903, 1191
BfuAI ACCTGC 1 cut(s) 764
BfuI GTATCC 2 cut(s) 326, 741
BisI GCNGC 1 cut(s) 115
BlsI GCNGC 1 cut(s) 116
Bme1390I CCNGG 3 cut(s) 206, 361, 1228
BmgT120I GGNCC 1 cut(s) 357
BmiI GGNNCC 2 cut(s) 223, 338
BmrFI CCNGG 3 cut(s) 206, 361, 1228
BmsI GCATC 5 cut(s) 866, 919, 1462, 1544, 1555
BpmI CTGGAG 1 cut(s) 1094
Bpu10I CCTNAGC 1 cut(s) 591
BpuEI CTTGAG 1 cut(s) 1374
BpuMI CCSGG 2 cut(s) 206, 1228
BsaI GGTCTC 1 cut(s) 441
BsaJI CCNNGG 2 cut(s) 232, 1424
BsaWI WCCGGW 1 cut(s) 161
BsaXI ACNNNNNCTCC 4 cut(s) 6, 36, 101, 131
Bsc4I CCNNNNNNNGG 3 cut(s) 755, 1013, 1150
Bse1I ACTGG 1 cut(s) 1218
Bse3DI GCAATG 1 cut(s) 1585
BseBI CCWGG 1 cut(s) 361
BseDI CCNNGG 2 cut(s) 232, 1424
BseGI GGATG 3 cut(s) 685, 981, 1489
BseLI CCNNNNNNNGG 3 cut(s) 755, 1013, 1150
BseMI GCAATG 1 cut(s) 1585
BseMII CTCAG 7 cut(s) 106, 582, 660, 795, 801, 807, 864
BseNI ACTGG 1 cut(s) 1218
BseRI GAGGAG 4 cut(s) 109, 112, 115, 547
BseXI GCAGC 1 cut(s) 101
Bsh1236I CGCG 2 cut(s) 308, 1179
BshFI GGCC 4 cut(s) 5, 359, 1217, 1312
BshNI GGYRCC 1 cut(s) 221
BsiHKAI GWGCWC 1 cut(s) 1061
BsiSI CCGG 4 cut(s) 162, 205, 370, 1228
BslI CCNNNNNNNGG 3 cut(s) 755, 1013, 1150
BsmAI GTCTC 4 cut(s) 13, 246, 441, 1548
BsmBI CGTCTC 2 cut(s) 13, 246
BsmI GAATGC 2 cut(s) 439, 1464
BsnI GGCC 4 cut(s) 5, 359, 1217, 1312
Bso31I GGTCTC 1 cut(s) 441
Bsp1286I GDGCHC 1 cut(s) 1061
Bsp143I GATC 5 cut(s) 463, 541, 710, 779, 1408
BspACI CCGC 5 cut(s) 308, 312, 565, 1144, 1355
BspANI GGCC 4 cut(s) 5, 359, 1217, 1312
BspCNI CTCAG 7 cut(s) 105, 583, 659, 796, 802, 808, 865
BspFNI CGCG 2 cut(s) 308, 1179
BspLI GGNNCC 2 cut(s) 223, 338
BspMI ACCTGC 1 cut(s) 764
BspPI GGATC 3 cut(s) 471, 536, 1403
BspT107I GGYRCC 1 cut(s) 221
BspTNI GGTCTC 1 cut(s) 441
BsrDI GCAATG 1 cut(s) 1585
BsrI ACTGG 1 cut(s) 1218
BssECI CCNNGG 2 cut(s) 232, 1424
BssMI GATC 5 cut(s) 463, 541, 710, 779, 1408
BssT1I CCWWGG 1 cut(s) 1424
Bst2UI CCWGG 1 cut(s) 361
Bst4CI ACNGT 1 cut(s) 1529
BstC8I GCNNGC 4 cut(s) 239, 310, 525, 934
BstDEI CTNAG 8 cut(s) 92, 591, 646, 804, 810, 816, 873, 1405
BstENI CCTNNNNNAGG 1 cut(s) 1011
BstF5I GGATG 3 cut(s) 685, 981, 1489
BstFNI CGCG 2 cut(s) 308, 1179
BstHHI GCGC 2 cut(s) 529, 1179
BstKTI GATC 5 cut(s) 466, 544, 713, 782, 1411
BstMAI GTCTC 4 cut(s) 13, 246, 441, 1548
BstMBI GATC 5 cut(s) 463, 541, 710, 779, 1408
BstNI CCWGG 1 cut(s) 361
BstNSI RCATGY 1 cut(s) 571
BstSCI CCNGG 3 cut(s) 204, 359, 1226
BstUI CGCG 2 cut(s) 308, 1179
BstV1I GCAGC 1 cut(s) 101
BstX2I RGATCY 2 cut(s) 463, 1408
BstYI RGATCY 2 cut(s) 463, 1408
BsuI GTATCC 2 cut(s) 326, 741
BsuRI GGCC 4 cut(s) 5, 359, 1217, 1312
BtsCI GGATG 3 cut(s) 685, 981, 1489
BtsI GCAGTG 1 cut(s) 14
BtsIMutI CAGTG 3 cut(s) 14, 1061, 1211
BveI ACCTGC 1 cut(s) 764
Cac8I GCNNGC 4 cut(s) 239, 310, 525, 934
CaiI CAGNNNCTG 1 cut(s) 803
CfoI GCGC 2 cut(s) 529, 1179
Cfr13I GGNCC 1 cut(s) 357
Csp6I GTAC 2 cut(s) 214, 229
CviAII CATG 6 cut(s) 438, 460, 568, 755, 1091, 1129
CviQI GTAC 2 cut(s) 214, 229
DdeI CTNAG 8 cut(s) 92, 591, 646, 804, 810, 816, 873, 1405
DpnI GATC 5 cut(s) 465, 543, 712, 781, 1410
DpnII GATC 5 cut(s) 463, 541, 710, 779, 1408
EaeI YGGCCR 2 cut(s) 3, 1215
Eco130I CCWWGG 1 cut(s) 1424
Eco147I AGGCCT 1 cut(s) 1312
Eco31I GGTCTC 1 cut(s) 441
Eco32I GATATC 2 cut(s) 408, 1421
Eco57I CTGAAG 2 cut(s) 1275, 1398
EcoNI CCTNNNNNAGG 1 cut(s) 1011
EcoRII CCWGG 1 cut(s) 359
EcoRV GATATC 2 cut(s) 408, 1421
EcoT14I CCWWGG 1 cut(s) 1424
EcoT22I ATGCAT 2 cut(s) 439, 859
ErhI CCWWGG 1 cut(s) 1424
Esp3I CGTCTC 2 cut(s) 13, 246
FaeI CATG 6 cut(s) 441, 463, 571, 758, 1094, 1132
FatI CATG 6 cut(s) 437, 459, 567, 754, 1090, 1128
FauI CCCGC 1 cut(s) 301
FauNDI CATATG 2 cut(s) 853, 1112
Fnu4HI GCNGC 1 cut(s) 115
FokI GGATG 3 cut(s) 672, 968, 1496
Fsp4HI GCNGC 1 cut(s) 115
FspBI CTAG 3 cut(s) 546, 903, 1191
FspI TGCGCA 1 cut(s) 528
GlaI GCGC 2 cut(s) 528, 1178
GluI GCNGC 1 cut(s) 115
GsuI CTGGAG 1 cut(s) 1094
HaeIII GGCC 4 cut(s) 5, 359, 1217, 1312
HapII CCGG 4 cut(s) 162, 205, 370, 1228
HhaI GCGC 2 cut(s) 529, 1179
Hin1II CATG 6 cut(s) 441, 463, 571, 758, 1094, 1132
Hin6I GCGC 2 cut(s) 527, 1177
HinP1I GCGC 2 cut(s) 527, 1177
HincII GTYRAC 1 cut(s) 1360
HindII GTYRAC 1 cut(s) 1360
HindIII AAGCTT 1 cut(s) 669
HinfI GANTC 9 cut(s) 21, 96, 472, 603, 806, 812, 863, 1121, 1334
HpaII CCGG 4 cut(s) 162, 205, 370, 1228
HphI GGTGA 1 cut(s) 738
Hpy166II GTNNAC 2 cut(s) 388, 1360
Hpy188III TCNNGA 3 cut(s) 1416, 1469, 1492
Hpy8I GTNNAC 2 cut(s) 388, 1360
Hpy99I CGWCG 1 cut(s) 221
HpyAV CCTTC 5 cut(s) 37, 73, 593, 1007, 1422
HpyCH4III ACNGT 1 cut(s) 1529
HpyCH4IV ACGT 1 cut(s) 216
HpyF3I CTNAG 8 cut(s) 92, 591, 646, 804, 810, 816, 873, 1405
HpySE526I ACGT 1 cut(s) 216
Hsp92II CATG 6 cut(s) 441, 463, 571, 758, 1094, 1132
HspAI GCGC 2 cut(s) 527, 1177
Kzo9I GATC 5 cut(s) 463, 541, 710, 779, 1408
LmnI GCTCC 3 cut(s) 122, 164, 534
Lsp1109I GCAGC 1 cut(s) 101
LweI GCATC 5 cut(s) 866, 919, 1462, 1544, 1555
MaeI CTAG 3 cut(s) 546, 903, 1191
MaeII ACGT 1 cut(s) 216
MaeIII GTNAC 8 cut(s) 164, 611, 824, 1131, 1182, 1209, 1303, 1393
MalI GATC 5 cut(s) 465, 543, 712, 781, 1410
MboI GATC 5 cut(s) 463, 541, 710, 779, 1408
MboII GAAGA 4 cut(s) 845, 885, 1352, 1360
MflI RGATCY 2 cut(s) 463, 1408
MhlI GDGCHC 1 cut(s) 1061
MlsI TGGCCA 1 cut(s) 1217
MluNI TGGCCA 1 cut(s) 1217
MlyI GAGTC 4 cut(s) 15, 90, 815, 821
MmeI TCCRAC 3 cut(s) 267, 424, 1135
Mox20I TGGCCA 1 cut(s) 1217
Mph1103I ATGCAT 2 cut(s) 439, 859
MscI TGGCCA 1 cut(s) 1217
MseI TTAA 3 cut(s) 342, 480, 1268
MslI CAYNNNNRTG 1 cut(s) 1095
Msp20I TGGCCA 1 cut(s) 1217
MspI CCGG 4 cut(s) 162, 205, 370, 1228
MspR9I CCNGG 3 cut(s) 206, 361, 1228
Mva1269I GAATGC 2 cut(s) 439, 1464
MvaI CCWGG 1 cut(s) 361
MvnI CGCG 2 cut(s) 308, 1179
NciI CCSGG 2 cut(s) 206, 1228
NdeI CATATG 2 cut(s) 853, 1112
NdeII GATC 5 cut(s) 463, 541, 710, 779, 1408
NlaIII CATG 6 cut(s) 441, 463, 571, 758, 1094, 1132
NlaIV GGNNCC 2 cut(s) 223, 338
NmuCI GTSAC 4 cut(s) 164, 611, 824, 1209
NsbI TGCGCA 1 cut(s) 528
NsiI ATGCAT 2 cut(s) 439, 859
NspI RCATGY 1 cut(s) 571
PceI AGGCCT 1 cut(s) 1312
PcsI WCGNNNNNNNCGW 1 cut(s) 222
PctI GAATGC 2 cut(s) 439, 1464
PfeI GAWTC 5 cut(s) 472, 603, 863, 1121, 1334
PflFI GACNNNGTC 1 cut(s) 1207
PfoI TCCNGGA 1 cut(s) 1226
PkrI GCNGC 1 cut(s) 116
PleI GAGTC 4 cut(s) 15, 90, 814, 820
PpsI GAGTC 4 cut(s) 15, 90, 814, 820
Psp6I CCWGG 1 cut(s) 359
PspGI CCWGG 1 cut(s) 359
PspN4I GGNNCC 2 cut(s) 223, 338
PspPI GGNCC 1 cut(s) 357
PstNI CAGNNNCTG 1 cut(s) 803
PsuI RGATCY 2 cut(s) 463, 1408
PsyI GACNNNGTC 1 cut(s) 1207
RsaI GTAC 2 cut(s) 215, 230
RsaNI GTAC 2 cut(s) 214, 229
RseI CAYNNNNRTG 1 cut(s) 1095
SaqAI TTAA 3 cut(s) 342, 480, 1268
SatI GCNGC 1 cut(s) 115
Sau3AI GATC 5 cut(s) 463, 541, 710, 779, 1408
Sau96I GGNCC 1 cut(s) 357
SchI GAGTC 4 cut(s) 15, 90, 815, 821
ScrFI CCNGG 3 cut(s) 206, 361, 1228
SduI GDGCHC 1 cut(s) 1061
SfaNI GCATC 5 cut(s) 866, 919, 1462, 1544, 1555
SmiMI CAYNNNNRTG 1 cut(s) 1095
SmlI CTYRAG 1 cut(s) 1389
SmoI CTYRAG 1 cut(s) 1389
SseBI AGGCCT 1 cut(s) 1312
SsiI CCGC 5 cut(s) 308, 312, 565, 1144, 1355
SspI AATATT 1 cut(s) 839
SspMI CTAG 3 cut(s) 546, 903, 1191
StuI AGGCCT 1 cut(s) 1312
StyD4I CCNGG 3 cut(s) 204, 359, 1226
StyI CCWWGG 1 cut(s) 1424
TaaI ACNGT 1 cut(s) 1529
TaiI ACGT 1 cut(s) 219
TaqI TCGA 3 cut(s) 675, 725, 927
TaqII GACCGA 1 cut(s) 967
TfiI GAWTC 5 cut(s) 472, 603, 863, 1121, 1334
Tru1I TTAA 3 cut(s) 342, 480, 1268
Tru9I TTAA 3 cut(s) 342, 480, 1268
TscAI CASTG 3 cut(s) 21, 1061, 1218
TseFI GTSAC 4 cut(s) 164, 611, 824, 1209
TseI GCWGC 1 cut(s) 114
Tsp45I GTSAC 4 cut(s) 164, 611, 824, 1209
TspGWI ACGGA 3 cut(s) 169, 308, 974
TspRI CASTG 3 cut(s) 21, 1061, 1218
Tth111I GACNNNGTC 1 cut(s) 1207
XagI CCTNNNNNAGG 1 cut(s) 1011
XapI RAATTY 4 cut(s) 259, 868, 888, 1444
XceI RCATGY 1 cut(s) 571
XcmI CCANNNNNNNNNTGG 1 cut(s) 435
XspI CTAG 3 cut(s) 546, 903, 1191
Zsp2I ATGCAT 2 cut(s) 439, 859
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.