FvH4_3g40070

tRNA pseudouridine

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0007446
Physical Location & Seq
Reverse (-)
33890268 .. 33895781
5514 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g40070.t3

Sequence Viewer

Length: 1530 bp
ATGGCTATGTCTTTACTGCGACTCCCGCTCTCGCTTTGGCTGCCGAAGCACCGGAGCGTGCGTTATGAATACCCGAAAATACCCTCGAGATTGAACGTTATTTGCTGCTGCTCTACCTCCGCTGCCACCGCCGAAGAAAGCTTAACTCACGCTGAAAGATGGGAATCGGTTCGGAAGAGGAAAGTGGTTCTCCGGGTCGGGTATGTGGGCACCGATTACCGAGGTCTGCAAATTCAAAGAGACGACCCTTCAATATCCACTATTGAGAAGGAACTGGAGACTGCCATATTCAAGGCCGGTGGTATTCGTGAGAGTAATTTCGGCAACCTGAACAAAATTTCGTGGGCCAGAAGTAGCCGAACCGATAAGGGAGTTCACTCCTTGGCGACAATGATATCGTTGAAAATGGAAATTCCTGAAAATGCGTGGGATGGAGACCCTTATGGCATTGCTCTTGTGAATCACATCAACTCTTACCTTCCTCGTGATATCAAGGTTTTTAGTGCTGTACCTGCGCAGAGGAGCTTTGATCCCAGAAAGGAGTGCAATCTTCGTATGTATTCATACCTCCTTCCTGCTGATGTTATTGGAATCAAAAGTCACTTCAGCGCAGCTGAAATTGAGGATCACATTGCAGACTTCAATGATATATTAAATGCTTTTGAGGGTGAACATCCTTTTCATAACTATACAATACGATCTAAATACCGGATGAAACTTCCTGGAAAGAAATCACCAATATACCGTAATATGTCAAAAACAGAAAGATCAACTGTTGAGGCATCATCATCCGAGCTTGAGGGAAGTGATGATGAAGATAAGTTCAAGGGAAGAAATTCATCAGAAACTGAGGTACTGAACCAAAATTCTTCTATGTCCAGCAATGGGAATGAAATCTTACTGCACGCTTGCAAGAAGCAGGAAGATGTTCTGAAGGAGAAAAGTACTGATTCAGTTGTCTATGCAAAATGGTTATACGAACCTGATGAGAGTGATAGAATCGGTGCTTCCCATTTCAGAAAGATATTTCGCTGTTCTTGCGGAAAGCTTGAAAAATCGCTGACGCATGAGTATGTTGAGCTTTCCATATGGGGAGAATCTTTCATGTTACATCAAATTCGCAAAATGGTTGGGACTGCTGTGGCCGTGAAGCGCAAGTTACTCCCAAGAGATATTCTGACATTGTCACTGGCTAAGTTCTCACGGATAATCCTACCCCTTGCCCCATCTGAAGTTTTGATCTTAAGAGGAAACAGATTTTCAATTAGAGAAAGACCTGGAAATGTAAAAAGACCTGAAATGATTGCAATGGTCGAATCAGAAGAAGTTATCAAACAGGTTGATGAGTTCTTCACATCTGTGATGTTGCCTCAAGTTGCAAAATTCTTAGAACCTTCAGGATATCCTTGGCAAGAATGGATTGAAAACCTGGATAGAAACACAGGTATTCCAGATAGAGAATTGGATGAAGTCAGAAATGCTTGGAAAGTGTGGAAGGAAAAGTTTGAGAGTGATGCATCAGCCCTATAG

Protein Analysis

510

Amino Acids

58.25

Weight (kDa)

8.28

Isoelectric Point (pI)

46.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_1 PF01416 336 - 412 5.9e-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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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 516
Acc36I ACCTGC 1 cut(s) 520
AccB1I GGYRCC 1 cut(s) 209
AccBSI CCGCTC 1 cut(s) 28
AciI CCGC 4 cut(s) 26, 120, 129, 1041
AclI AACGTT 1 cut(s) 96
AclWI GGATC 2 cut(s) 524, 633
AcoI YGGCCR 1 cut(s) 1143
AcsI RAATTY 7 cut(s) 231, 336, 411, 835, 865, 1116, 1382
AcuI CTGAAG 4 cut(s) 589, 953, 1251, 1380
AfaI GTAC 3 cut(s) 510, 855, 946
AfiI CCNNNNNNNGG 1 cut(s) 885
AflII CTTAAG 1 cut(s) 1243
AjnI CCWGG 3 cut(s) 721, 1276, 1428
AleI CACNNNNGTG 1 cut(s) 1358
AluBI AGCT 6 cut(s) 141, 525, 614, 796, 1048, 1081
AluI AGCT 6 cut(s) 141, 525, 614, 796, 1048, 1081
Alw26I GTCTC 3 cut(s) 234, 272, 429
AlwI GGATC 2 cut(s) 524, 633
AlwNI CAGNNNCTG 1 cut(s) 848
Ama87I CYCGRG 1 cut(s) 85
AoxI GGCC 3 cut(s) 294, 345, 1143
ApeKI GCWGC 5 cut(s) 40, 105, 108, 122, 611
ApoI RAATTY 7 cut(s) 231, 336, 411, 835, 865, 1116, 1382
Asp700I GAANNNNTTC 3 cut(s) 168, 835, 927
AspLEI GCGC 3 cut(s) 517, 611, 1155
AspS9I GGNCC 1 cut(s) 345
AsuC2I CCSGG 1 cut(s) 194
AsuHPI GGTGA 2 cut(s) 680, 726
AvaI CYCGRG 1 cut(s) 85
BaeGI GKGCMC 1 cut(s) 212
BanI GGYRCC 1 cut(s) 209
BauI CACGAG 1 cut(s) 483
BbvI GCAGC 5 cut(s) 27, 92, 95, 109, 623
BccI CCATC 3 cut(s) 153, 425, 1234
BceAI ACGGC 1 cut(s) 1130
BciT130I CCWGG 3 cut(s) 723, 1278, 1430
BcnI CCSGG 1 cut(s) 194
BcoDI GTCTC 3 cut(s) 234, 272, 429
BfmI CTRYAG 1 cut(s) 1526
BfrI CTTAAG 1 cut(s) 1243
BfuAI ACCTGC 1 cut(s) 520
BisI GCNGC 5 cut(s) 41, 106, 109, 123, 612
BlsI GCNGC 5 cut(s) 42, 107, 110, 124, 613
BmcAI AGTACT 1 cut(s) 946
Bme1390I CCNGG 4 cut(s) 194, 723, 1278, 1430
BmeT110I CYCGRG 1 cut(s) 85
BmgT120I GGNCC 1 cut(s) 345
BmiI GGNNCC 1 cut(s) 211
BmrFI CCNGG 4 cut(s) 194, 723, 1278, 1430
BmsI GCATC 3 cut(s) 791, 1504, 1526
BpmI CTGGAG 1 cut(s) 296
BpuEI CTTGAG 2 cut(s) 818, 1356
BpuMI CCSGG 1 cut(s) 194
BsaBI GATNNNNATC 1 cut(s) 163
BsaI GGTCTC 1 cut(s) 429
BsaJI CCNNGG 3 cut(s) 220, 381, 1406
BsaWI WCCGGW 2 cut(s) 51, 708
BsaXI ACNNNNNCTCC 4 cut(s) 6, 36, 46, 76
Bsc4I CCNNNNNNNGG 1 cut(s) 885
Bse118I RCCGGY 1 cut(s) 296
Bse1I ACTGG 2 cut(s) 279, 1194
Bse3DI GCAATG 4 cut(s) 447, 630, 889, 1314
Bse8I GATNNNNATC 1 cut(s) 163
BseBI CCWGG 3 cut(s) 723, 1278, 1430
BseDI CCNNGG 3 cut(s) 220, 381, 1406
BseGI GGATG 5 cut(s) 436, 673, 717, 788, 1471
BseJI GATNNNNATC 1 cut(s) 163
BseLI CCNNNNNNNGG 1 cut(s) 885
BseMI GCAATG 4 cut(s) 447, 630, 889, 1314
BseMII CTCAG 1 cut(s) 840
BseNI ACTGG 2 cut(s) 279, 1194
BseRI GAGGAG 1 cut(s) 535
BseSI GKGCMC 1 cut(s) 212
BseXI GCAGC 5 cut(s) 27, 92, 95, 109, 623
BsgI GTGCAG 1 cut(s) 887
BshFI GGCC 3 cut(s) 296, 347, 1145
BshNI GGYRCC 1 cut(s) 209
BsiHKCI CYCGRG 1 cut(s) 85
BsiSI CCGG 4 cut(s) 52, 193, 297, 709
BslFI GGGAC 1 cut(s) 1147
BslI CCNNNNNNNGG 1 cut(s) 885
BsmAI GTCTC 3 cut(s) 234, 272, 429
BsmBI CGTCTC 1 cut(s) 234
BsmFI GGGAC 1 cut(s) 1147
BsnI GGCC 3 cut(s) 296, 347, 1145
Bso31I GGTCTC 1 cut(s) 429
BsoBI CYCGRG 1 cut(s) 85
Bsp1286I GDGCHC 1 cut(s) 212
Bsp143I GATC 5 cut(s) 529, 625, 698, 767, 1239
BspACI CCGC 4 cut(s) 26, 120, 129, 1041
BspANI GGCC 3 cut(s) 296, 347, 1145
BspCNI CTCAG 1 cut(s) 841
BspLI GGNNCC 1 cut(s) 211
BspMI ACCTGC 1 cut(s) 520
BspPI GGATC 2 cut(s) 524, 633
BspT107I GGYRCC 1 cut(s) 209
BspTI CTTAAG 1 cut(s) 1243
BspTNI GGTCTC 1 cut(s) 429
BsrBI CCGCTC 1 cut(s) 28
BsrDI GCAATG 4 cut(s) 447, 630, 889, 1314
BsrFI RCCGGY 1 cut(s) 296
BsrI ACTGG 2 cut(s) 279, 1194
BssAI RCCGGY 1 cut(s) 296
BssECI CCNNGG 3 cut(s) 220, 381, 1406
BssMI GATC 5 cut(s) 529, 625, 698, 767, 1239
BssSI CACGAG 1 cut(s) 483
BssT1I CCWWGG 2 cut(s) 381, 1406
Bst2BI CACGAG 1 cut(s) 483
Bst2UI CCWGG 3 cut(s) 723, 1278, 1430
Bst4CI ACNGT 2 cut(s) 746, 775
Bst6I CTCTTC 1 cut(s) 170
BstAFI CTTAAG 1 cut(s) 1243
BstC8I GCNNGC 3 cut(s) 59, 906, 910
BstDEI CTNAG 3 cut(s) 849, 1194, 1387
BstF5I GGATG 5 cut(s) 436, 673, 717, 788, 1471
BstHHI GCGC 3 cut(s) 517, 611, 1155
BstKTI GATC 5 cut(s) 532, 628, 701, 770, 1242
BstMAI GTCTC 3 cut(s) 234, 272, 429
BstMBI GATC 5 cut(s) 529, 625, 698, 767, 1239
BstMWI GCNNNNNNNGC 6 cut(s) 25, 40, 46, 128, 512, 1038
BstNI CCWGG 3 cut(s) 723, 1278, 1430
BstSCI CCNGG 4 cut(s) 192, 721, 1276, 1428
BstSFI CTRYAG 1 cut(s) 1526
BstSLI GKGCMC 1 cut(s) 212
BstV1I GCAGC 5 cut(s) 27, 92, 95, 109, 623
BsuRI GGCC 3 cut(s) 296, 347, 1145
BtsCI GGATG 5 cut(s) 436, 673, 717, 788, 1471
BtsIMutI CAGTG 1 cut(s) 1187
BveI ACCTGC 1 cut(s) 520
Cac8I GCNNGC 3 cut(s) 59, 906, 910
CaiI CAGNNNCTG 1 cut(s) 848
CfoI GCGC 3 cut(s) 517, 611, 1155
Cfr10I RCCGGY 1 cut(s) 296
Cfr13I GGNCC 1 cut(s) 345
CseI GACGC 1 cut(s) 1072
Csp6I GTAC 3 cut(s) 509, 854, 945
CspCI CAANNNNNGTGG 2 cut(s) 280, 315
CviAII CATG 2 cut(s) 1067, 1105
CviQI GTAC 3 cut(s) 509, 854, 945
DdeI CTNAG 3 cut(s) 849, 1194, 1387
DpnI GATC 5 cut(s) 531, 627, 700, 769, 1241
DpnII GATC 5 cut(s) 529, 625, 698, 767, 1239
EaeI YGGCCR 1 cut(s) 1143
Eam1104I CTCTTC 1 cut(s) 170
EarI CTCTTC 1 cut(s) 170
Eco130I CCWWGG 2 cut(s) 381, 1406
Eco31I GGTCTC 1 cut(s) 429
Eco32I GATATC 3 cut(s) 396, 490, 1403
Eco57I CTGAAG 4 cut(s) 589, 953, 1251, 1380
Eco88I CYCGRG 1 cut(s) 85
EcoRII CCWGG 3 cut(s) 721, 1276, 1428
EcoRV GATATC 3 cut(s) 396, 490, 1403
EcoT14I CCWWGG 2 cut(s) 381, 1406
EcoT22I ATGCAT 1 cut(s) 1519
ErhI CCWWGG 2 cut(s) 381, 1406
Esp3I CGTCTC 1 cut(s) 234
FaeI CATG 2 cut(s) 1070, 1108
FaqI GGGAC 1 cut(s) 1147
FatI CATG 2 cut(s) 1066, 1104
FauI CCCGC 1 cut(s) 33
FauNDI CATATG 1 cut(s) 1088
Fnu4HI GCNGC 5 cut(s) 41, 106, 109, 123, 612
FokI GGATG 5 cut(s) 443, 660, 724, 775, 1478
Fsp4HI GCNGC 5 cut(s) 41, 106, 109, 123, 612
FspI TGCGCA 1 cut(s) 516
GlaI GCGC 3 cut(s) 516, 610, 1154
GluI GCNGC 5 cut(s) 41, 106, 109, 123, 612
GsuI CTGGAG 1 cut(s) 296
HaeIII GGCC 3 cut(s) 296, 347, 1145
HapII CCGG 4 cut(s) 52, 193, 297, 709
HgaI GACGC 1 cut(s) 1072
HhaI GCGC 3 cut(s) 517, 611, 1155
Hin1II CATG 2 cut(s) 1070, 1108
Hin6I GCGC 3 cut(s) 515, 609, 1153
HinP1I GCGC 3 cut(s) 515, 609, 1153
HindIII AAGCTT 2 cut(s) 139, 1046
HinfI GANTC 8 cut(s) 21, 164, 460, 591, 950, 999, 1097, 1316
HpaII CCGG 4 cut(s) 52, 193, 297, 709
HphI GGTGA 2 cut(s) 680, 726
Hpy166II GTNNAC 2 cut(s) 376, 671
Hpy188I TCNGA 9 cut(s) 174, 793, 844, 933, 1019, 1179, 1231, 1321, 1475
Hpy188III TCNNGA 6 cut(s) 87, 308, 416, 485, 1398, 1451
Hpy8I GTNNAC 2 cut(s) 376, 671
HpyAV CCTTC 7 cut(s) 258, 262, 488, 581, 928, 1404, 1489
HpyCH4III ACNGT 2 cut(s) 746, 775
HpyCH4IV ACGT 1 cut(s) 96
HpyCH4V TGCA 9 cut(s) 229, 546, 635, 904, 912, 965, 1307, 1379, 1517
HpyF10VI GCNNNNNNNGC 6 cut(s) 25, 40, 46, 128, 512, 1038
HpyF3I CTNAG 3 cut(s) 849, 1194, 1387
HpySE526I ACGT 1 cut(s) 96
Hsp92II CATG 2 cut(s) 1070, 1108
HspAI GCGC 3 cut(s) 515, 609, 1153
Kzo9I GATC 5 cut(s) 529, 625, 698, 767, 1239
LmnI GCTCC 2 cut(s) 54, 522
Lsp1109I GCAGC 5 cut(s) 27, 92, 95, 109, 623
LweI GCATC 3 cut(s) 791, 1504, 1526
MaeII ACGT 1 cut(s) 96
MaeIII GTNAC 4 cut(s) 599, 1107, 1158, 1185
MalI GATC 5 cut(s) 531, 627, 700, 769, 1241
MbiI CCGCTC 1 cut(s) 28
MboI GATC 5 cut(s) 529, 625, 698, 767, 1239
MboII GAAGA 9 cut(s) 146, 187, 542, 827, 843, 861, 935, 1334, 1342
MhlI GDGCHC 1 cut(s) 212
MlyI GAGTC 1 cut(s) 15
Mph1103I ATGCAT 1 cut(s) 1519
MroXI GAANNNNTTC 3 cut(s) 168, 835, 927
MseI TTAA 3 cut(s) 143, 653, 1244
MslI CAYNNNNRTG 2 cut(s) 1071, 1358
MspA1I CMGCKG 2 cut(s) 122, 614
MspCI CTTAAG 1 cut(s) 1243
MspI CCGG 4 cut(s) 52, 193, 297, 709
MspR9I CCNGG 4 cut(s) 194, 723, 1278, 1430
MvaI CCWGG 3 cut(s) 723, 1278, 1430
MwoI GCNNNNNNNGC 6 cut(s) 25, 40, 46, 128, 512, 1038
NciI CCSGG 1 cut(s) 194
NdeI CATATG 1 cut(s) 1088
NdeII GATC 5 cut(s) 529, 625, 698, 767, 1239
NlaIII CATG 2 cut(s) 1070, 1108
NlaIV GGNNCC 1 cut(s) 211
NmuCI GTSAC 2 cut(s) 599, 1185
NsbI TGCGCA 1 cut(s) 516
NsiI ATGCAT 1 cut(s) 1519
OliI CACNNNNGTG 1 cut(s) 1358
PaeR7I CTCGAG 1 cut(s) 85
PdmI GAANNNNTTC 3 cut(s) 168, 835, 927
PfeI GAWTC 7 cut(s) 164, 460, 591, 950, 999, 1097, 1316
PflFI GACNNNGTC 1 cut(s) 1183
PfoI TCCNGGA 1 cut(s) 721
PkrI GCNGC 5 cut(s) 42, 107, 110, 124, 613
PleI GAGTC 1 cut(s) 15
PpsI GAGTC 1 cut(s) 15
Psp1406I AACGTT 1 cut(s) 96
Psp6I CCWGG 3 cut(s) 721, 1276, 1428
PspGI CCWGG 3 cut(s) 721, 1276, 1428
PspN4I GGNNCC 1 cut(s) 211
PspPI GGNCC 1 cut(s) 345
PstNI CAGNNNCTG 1 cut(s) 848
PsyI GACNNNGTC 1 cut(s) 1183
PvuII CAGCTG 1 cut(s) 614
RsaI GTAC 3 cut(s) 510, 855, 946
RsaNI GTAC 3 cut(s) 509, 854, 945
RseI CAYNNNNRTG 2 cut(s) 1071, 1358
SaqAI TTAA 3 cut(s) 143, 653, 1244
SatI GCNGC 5 cut(s) 41, 106, 109, 123, 612
Sau3AI GATC 5 cut(s) 529, 625, 698, 767, 1239
Sau96I GGNCC 1 cut(s) 345
ScaI AGTACT 1 cut(s) 946
SchI GAGTC 1 cut(s) 15
ScrFI CCNGG 4 cut(s) 194, 723, 1278, 1430
SduI GDGCHC 1 cut(s) 212
SfaNI GCATC 3 cut(s) 791, 1504, 1526
SfcI CTRYAG 1 cut(s) 1526
Sfr274I CTCGAG 1 cut(s) 85
SlaI CTCGAG 1 cut(s) 85
SmiMI CAYNNNNRTG 2 cut(s) 1071, 1358
SmlI CTYRAG 4 cut(s) 85, 797, 1243, 1371
SmoI CTYRAG 4 cut(s) 85, 797, 1243, 1371
SsiI CCGC 4 cut(s) 26, 120, 129, 1041
StyD4I CCNGG 4 cut(s) 192, 721, 1276, 1428
StyI CCWWGG 2 cut(s) 381, 1406
TaaI ACNGT 2 cut(s) 746, 775
TaiI ACGT 1 cut(s) 99
TaqI TCGA 2 cut(s) 86, 1314
TatI WGTACW 1 cut(s) 944
TfiI GAWTC 7 cut(s) 164, 460, 591, 950, 999, 1097, 1316
Tru1I TTAA 3 cut(s) 143, 653, 1244
Tru9I TTAA 3 cut(s) 143, 653, 1244
TscAI CASTG 1 cut(s) 1194
TseFI GTSAC 2 cut(s) 599, 1185
TseI GCWGC 5 cut(s) 40, 105, 108, 122, 611
Tsp45I GTSAC 2 cut(s) 599, 1185
TspDTI ATGAA 9 cut(s) 81, 552, 671, 728, 828, 828, 906, 1093, 1482
TspGWI ACGGA 1 cut(s) 1219
TspRI CASTG 1 cut(s) 1194
Tth111I GACNNNGTC 1 cut(s) 1183
Vha464I CTTAAG 1 cut(s) 1243
XapI RAATTY 7 cut(s) 231, 336, 411, 835, 865, 1116, 1382
XhoI CTCGAG 1 cut(s) 85
XmnI GAANNNNTTC 3 cut(s) 168, 835, 927
ZrmI AGTACT 1 cut(s) 946
Zsp2I ATGCAT 1 cut(s) 1519
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.