Table 1.
Information on the Cx. pipiens miRNA examined in this study
| miRBase Name | Sequence | Location in genome |
|---|---|---|
| Previously known miRNAs that are also found in Culex quinquefasciatus | ||
| cpp-bantam | UGAGGUAGUUGGUUGUAUAGU | supercont3.65: 199694-199763:− |
| cpp-let-7 | UGAGGUAGUUGGUUGUAUAGU | supercont3.4:280600:280681:+ |
| cpp-miR-1-3p | UGGAAUGUAAAGAAGUAUGGAG | supercont3.78:246202:246281:+ |
| cpp-miR-2-3p-1 | UAUCACAGCCAGCUUUGAAGAGC | supercont3.366:116579:116662: − |
| cpp-miR-2-3p-2 | UAUCACAGCCAGCUUUGAAGAGC | supercont3.366:116853:116935: − |
| cpp-miR-2-3p-3 | UAUCACAGCCAGCUUUGAAGAGC | supercont3.366:117351:117432: − |
| cpp-miR-7 | UGGAAGACUAGUGAUUUUGUUGU | supercont3.1:3357343:3357422: − |
| cpp-miR-8 | UAAUACUGUCAGGUAAAGAUGUC | supercont3.40:815854:815935: − |
| cpp-miR-9 | UCUUUGGUUAUCUAGCUGUA | supercont3.1009:114890:114972: − |
| cpp-miR-10-3p | CAAAUUCGGUUCUAGAGAGGUUU | supercont3.12:95990:96072: − |
| cpp-miR-11-3p | CAUCACAGUCUGAGUUCUUGCU | supercont3.153:639659:639743: − |
| cpp-miR-12-3p | UGAGUAUUACAUCAGGUACUGGU | supercont3.153: 639666-639741: − |
| cpp-miR-13 | UAUCACAGCCAUUUUGACGAGUU | supercont3.366:116983:117072: − |
| cpp-miR-14-3p | UCAGUCUUUUUCUCUCUCCUAU | supercont3.676:52241:52327: − |
| cpp-miR-31 | UGGCAAGAUGUUGGCAUAGCUGA | supercont3.559:256532:256609: − |
| cpp-miR-33 | GUGCAUUGUAGUUGCAUUGCA | supercont3.1258: 69328-69403: − |
| cpp-miR-71 | AGAAAGACAUGGGUAGUGAGAU | supercont3.366:117493:117583: − |
| cpp-miR-79-3p | UAAAGCUAGAUUACCAAAGCAU | supercont3.83:80579:80662:+ |
| cpp-miR-87 | GUGAGCAAAUUUUCAGGUGUGU | supercont3.431:379743:379819:+ |
| cpp-miR-92a | UAUUGCACUUGUCCCGGCCUAU | supercont3.722:174902:174982: − |
| cpp-miR-92b | AAUUGCACUUGUCCCGGCCUGC | supercont3.722:164904:164984: − |
| cpp-miR-100 | AACCCGUAGAUCCGAACUUGUG | supercont3.4:271404:271484:+ |
| cpp-miR-124 | UAAGGCACGCGGUGAAUGCCAA | supercont3.8:2074719:2074803:+ |
| cpp-miR-125 | UCCCUGAGACCCUAACUUGUGA | supercont3.4:280965:281043:+ |
| cpp-miR-133-3p | UUGGUCCCCUUCAACCAGCUGU | supercont3.1189: 55672-55785:+ |
| cpp-miR-137-3p | UAUUGCUUGAGAAUACACGUAG | supercont3.1714:27556:27636: − |
| cpp-miR-184-3p | UGGACGGAGAACUGAUAAGGGC | supercont3.567:240302:240382: − |
| cpp-miR-190-1 | AGAUAUGUUUGAUAUUCUUGGUUG | supercont3.181:347902:347986: − |
| cpp-miR-190-2 | AGAUAUGUUUGAUAUUCUUGGUUG | supercont3.1806:19610:19690: − |
| cpp-miR-210-3p | CUUGUGCGUGUGACAACGGCUAU | supercont3.549:157647:157724: − |
| cpp-miR-252-1 | CUAAGUACUAGUGCCGCAGGAG | supercont3.1787:6793:6867: − |
| cpp-miR-252-2 | CUAAGUACUAGUGCCGCAGGAG | supercont3.174:422878:422969: − |
| cpp-miR-263 | AATGGCACTGGAAGAATTCACGG | supercont3.219:351799:351880: − |
| cpp-miR-275 | TCAGGTACCTGAAGTAGCGCG | supercont3.291:329765:329845:+ |
| cpp-miR-276-3p-1 | UAGGAACUUCAUACCGUGCUCU | supercont3.136:340857:340942:+ |
| cpp-miR-276-3p-2 | UAGGAACUUCAUACCGUGCUCU | supercont3.136:541142:541223:+ |
| cpp-miR-276-3p-3 | UAGGAACUUCAUACCGUGCUCU | supercont3.2457:876:961:+ |
| cpp-miR-277 | UAAAUGCACUAUCUGGUACGACA | supercont3.36:1153726:1153817:+ |
| cpp-miR-278-3p | UCGGUGGGACUUUCGUCCGUUU | supercont3.16:1026152:1026243:+ |
| cpp-miR-279-3p | UGACUAGAUCCACACUCAUUAA | supercont3.19:1441114:1441197: − |
| cpp-miR-281-1 | AAGAGAGCUAUCCGUCGACAGU | supercont3.1661:13247:13325:+ |
| cpp-miR-281-2 | AAGAGAGCUAUCCGUCGACAGU | supercont3.640:99734:99812:+ |
| cpp-miR-283 | CAAUAUCAGCUGGUAAUUCUGGG | supercont3.57: 559440-559549 :+ |
| cpp-miR-285-3p | UAGCACCAUUCGAAAUCAGUAC | supercont3.98:262280:262362: − |
| cpp-miR-305 | ATTGTACTTCATCAGGTGCTC | supercont3.291:339122:339204:+ |
| cpp-miR-306 | UCAGGUACUGAGUGACUCUCAG | supercont3.83: 80431-80502:+ |
| cpp-miR-308 | CGCGGTATATTCTTGTGGCTTG | supercont3.98:764123:764204:+ |
| cpp-miR-309-3p | UCACUGGGCAUAGUUUGUCGC | supercont3.145: 66026-66116: − |
| cpp-miR-315 | UUUUGAUUGUUGCUCAGAAAGC | supercont3.438:61916:61999:+ |
| cpp-miR-316 | UGUCUUUUUCCGCUUACUGCCG | supercont3.496:152458:152539: − |
| cpp-miR-317-3p-1 | UGAACACAGCUGGUGGUAUCU | supercont3.36:1133161:1133241:+ |
| cpp-miR-317-3p-2 | UGAACACAGCUGGUGGUAUCU | supercont3.36:1134827:1134907:+ |
| cpp-miR-375-1 | UUUGUUCGUUUGGCUCGAGUUA | supercont3.4:25124:25212: − |
| cpp-miR-375-2 | UUUGUUCGUUUGGCUCGAGUUA | supercont3.455:42526:42614:+ |
| cpp-miR-932-3p | UGCAAGCAAUGUGGAAGUGA | supercont3.261:301401:301481: − |
| cpp-miR-957-3p | UGAAACCGUCCAAAACUGAGGC | supercont3.787:29537:29622:+ |
| cpp-miR-965-3p | UAAGCGUAUAGCUUUUCCCAUU | supercont3.48:484122:484208:+ |
| cpp-miR-970-3p | UCAUAAGACACACGCGGCUAU | supercont3.495: 35917-36003:+ |
| cpp-miR-980-3p | TAGCTGCCTTGTGAAGGGCTTA | supercont3.263:352870:352954:+ |
| cpp-miR-981 | UUCGUUGUCGACGAAACCUGCA | supercont3.431: 151310-151408:+ |
| cpp-miR-988-3p | CCCUUGUUGCAAACCUCACGC | supercont3.791:14282:14361:+ |
| cpp-miR-989-3p | UGUGAUGUGACGUAGUGGUAC | supercont3.315:321306:321394:+ |
| cpp-miR-993 | UACCCUGUAGUUCCGGGCUUUU | supercont3.12:55477:55565:+ |
| cpp-miR-996 | UGACUAGAUUACAUGCUCGU | supercont3.19:1437000:1437085: − |
| cpp-miR-998 | ACTGAATTCTCGTGGGTCTGCA | supercont3.153:639515:639597: − |
| cpp-miR-999-3p | UGUUAACUGUAAGACUGUGUCU | supercont3.14:96865:96948:+ |
| cpp-miR-1000 | AUAUUGUCCUGUCACAGCAGU | supercont3.153: 102798-102891: − |
| cpp-miR-1174 | CUGGGUAUUUUAGAUCAUCGGC | supercont3.86:865891:865964:+ |
| cpp-miR-1175 | AAGUGGAGUAGUGGUCUCAUCG | supercont3.86:866106:866187:+ |
| cpp-miR-1889 | UAAUCUCAAAUUGUAACAGUGG | supercont3.57: 562539-562677:+ |
| cpp-miR-1890 | UGAAAUCUUUGAUUAGGUCU | supercont3.64:982778:982862: − |
| cpp-miR-1891 | UGAGGAGUUAAUUUGCGUGUUU | supercont3.829: 180333-180418: − |
| cpp-miR-2941-3p-1 | UAGUACGGCUAGAACUCCACGG | supercont3.5:753632:753715: − |
| cpp-miR-2941-3p-2 | UAGUACGGCUAGAACUCCACGG | supercont3.5:753786:753871: − |
| cpp-miR-2951-1 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.1464: 4408-4477:+ |
| cpp-miR-2951-2 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.1464: 13130-13199:+ |
| cpp-miR-2951-3 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.1464: 21931-22000 :+ |
| cpp-miR-2951-4 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.1464: 30698-30767:+ |
| cpp-miR-2951-5 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.1464: 39499-39568:+ |
| cpp-miR-2951-6 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.1464: 48275-48344:+ |
| cpp-miR-2951-7 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.1464: 56986-57055:+ |
| cpp-miR-2951-8 | GAAGAGCTCAGCACGCAGGGGTG | supercont3.679: 54985-55054:+ |
| cpp-miR-2952-3p | UAGUACGGCCAUGACUGAGGGC | supercont3.5: 753920-753983: − |
| cpp-miR-iab-4 | ACGUAUACUGAAUGUAUCCUGA | supercont3.12:681153:681228:+ |
| Previously known miRNAs that are also found in non-Culex quinquefasciatus species | ||
| cpp-miR-2779-1 | AUAUCCGGCUCGAAGGACCA | supercont3.1527:60074:60167:+ |
| cpp-miR-2779-2 | AUAUCCGGCUCGAAGGACCA | supercont3.2199:21971:22064: − |
| cpp-miR-2779-3 | AUAUCCGGCUCGAAGGACCA | supercont3.806:109239:109311: − |
| cpp-miR-2796-3p | GUAGGCCGGCGGAAACUACUUGC | supercont3.1234:55494:55572: − |
| cpp-miR-2840 | UAGGAACUGGAAGAAGAGGAGG | supercont3.830:78060:78155: − |
| cpp-miR-2942 | UAUUCGAGACUUCACGAGUUAAU | supercont3.277:323072:323166:+ |
| cpp-miR-2944b | GAAGGAACUCCCGGUGUGAUAUA | supercont3.145:66345:66420: − |
| cpp-miR-2945 | UGACUAGAGGCAGACUCGUUUA | supercont3.4:184409:184491:+ |
| cpp-miR-2981 | CCGGGCCGGGCGGGCGGG | supercont3.772:7842:7925: − |
| cpp-miR-3781 | UAAGUGAUUGAUCGAUCGUGGAU | supercont3.1005:38090:38187: − |
| cpp-miR-4682 | UCUGAGUUCCUGGAGCCUGGUCU | supercont3.1:1608156:1608242:+ |
| cpp-miR-4448 | GGCUCCUUGGUCUAGGGGUA | supercont3.461:292111:292200: − |
| cpp-miR-307 | UCACAACCUCCUUGAGUGAGCGA | supercont3.16:157813:157891: − |
| cpp-miR-493-3p | UGAAGGUCCUACUGUGUGCCAGG | supercont3.147:509902:509990:+ |
| cpp-miR-929-3p | CUCCCUAACGGAGUCAGAUUG | supercont3.60:858168:858245: − |
| cpp-miR-1290 | UGGAUUUUUGGAUCAGAGA | supercont3.383:279453:279536:+ |
| Novel miRNAs found in this study | ||
| cpp-novel-miR1 | AGAGCTAATTGGAGACTTCTTG | supercont3.64:982778:982859: − |
| cpp-novel-miR2-1 | GTGTCCTGTCACGGTCGCCA | supercont3.360:171826:171903: − |
| cpp-novel-miR2-2 | GTGTCCTGTCACGGTCGCCA | supercont3.88:405605:405682: − |
| cpp-novel-miR3-3p | GTTTGAACTTGATCCGCGGCTGA | supercont3.112:3529:3623: − |
| cpp-novel-miR4 | GTGCTTTTCGTTGGAACTTG | supercont3.153:639486:639575: − |
| cpp-novel-miR5 | AATTAGAAATCACACAAACGTT | supercont3.316:156915:156993:+ |
| cpp-novel-miR6-3p | TAGGGAAACAGATTGGCCAATG | supercont3.1403:25947:26028:+ |
| cpp-novel-miR7-3p-1 | ACATCGCGTGTCGTTGGCAT | supercont3.1002:30216:30294: − |
| cpp-novel-miR7-3p-2 | ACATCGCGTGTCGTTGGCAT | supercont3.1002:37099:37177: − |
| cpp-novel-miR7-3p-3 | ACATCGCGTGTCGTTGGCAT | supercont3.1002:45236:45314: − |
| cpp-novel-miR7-3p-4 | ACATCGCGTGTCGTTGGCAT | supercont3.1002:54195:54273: − |
| cpp-novel-miR8-3p | ACACGTCCATTAACTCTGGTAC | supercont3.829:180337:180416: − |
| cpp-novel-miR9-1 | AATCGGAATTCTAAAACGGAA | supercont3.156:169435:169530: − |
| cpp-novel-miR9-2 | AATCGGAATTCTAAAACGGAA | supercont3.213:211573:211659: − |
| cpp-novel-miR9-3 | AATCGGAATTCTAAAACGGAA | supercont3.664:19971:20057:+ |
| cpp-novel-miR9-4 | AATCGGAATTCTAAAACGGAA | supercont3.924:122727:122815:+ |
| cpp-novel-miR10 | TGATCTTGTATTTTGATGCTCC | supercont3.329:155673:155749: − |
| cpp-novel-miR11-3p | CAGTGCATGGCCAACACGGTTT | supercont3.1328:35831:35912:+ |
| cpp-novel-miR12 | GGTGTTCACTGCCGGCCTGTATG | supercont3.8:2074722:2074801:+ |
| cpp-novel-miR13 | GTTAGTTTTGGGCGGGTTTTAGT | supercont3.787:29538:29623:+ |
| cpp-novel-miR14-3p | GGCGCGAGCGTGTGTTATTC | supercont3.196:659156:659228:+ |
| cpp-novel-miR15 | ATTTGTGGTATATGTCGGACGAG | supercont3.829:126138:126232:+ |
| cpp-novel-miR16-3p | AAGGAGTGGAACTTGGTCGCGGA | supercont3.112:109706:109789:+ |
| cpp-novel-miR17-3p | CGGGATTCCAACTGATATCCAC | supercont3.57:559449:559540:+ |
| cpp-novel-miR18-3p-1 | TTGCAGTGGATGGTCGTTTGACG | supercont3.1369:75814:75893: − |
| cpp-novel-miR18-3p-2 | TTGCAGTGGATGGTCGTTTGACG | supercont3.91:950407:950490: − |
| cpp-novel-miR19-3p-1 | CAGGAGTTGATTTGGAGGACACCA | supercont3.1422:16129:16229:+ |
| cpp-novel-miR19-3p-2 | CAGGAGTTGATTTGGAGGACACCA | supercont3.830:159415:159515: − |
| cpp-novel-miR20-1 | TGATTGTTTACACTCGATCGTTGG | supercont3.533:194362:194441:+ |
| cpp-novel-miR20-2 | TGATTGTTTACACTCGATCGTTGG | supercont3.816:142480:142580:+ |
| cpp-novel-miR20-3 | TGATTGTTTACACTCGATCGTTGG | supercont3.843:44076:44155:+ |
| cpp-novel-miR21-1 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.1761:8353:8427: − |
| cpp-novel-miR21-2 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.1761:10406:10480: − |
| cpp-novel-miR21-3 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.207:246904:246978: − |
| cpp-novel-miR21-4 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.207:248944:249018: − |
| cpp-novel-miR21-5 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.2777:15561:15635: − |
| cpp-novel-miR21-6 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.46:879159:879234:+ |
| cpp-novel-miR21-7 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.65:252545:252619:+ |
| cpp-novel-miR21-8 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.65:254717:254791:+ |
| cpp-novel-miR21-9 | TTGTCAGTGACGGGTAGTTAGGTT | upercont3.69:203697:203771: − |
| cpp-novel-miR21-10 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.69:205631:205705: − |
| cpp-novel-miR21-11 | TTGTCAGTGACGGGTAGTTAGGTT | supercont3.78:292181:292255: − |