High-throughput sequencing of small RNAs and analysis of differentially expressed microRNAs associated with pistil development in Japanese apricot

Gao, Zhihong; Shi, Ting; Luo, Xiaoyan; Zhang, Zhen; Zhuang, Weibing; Wang, Liangju

doi:10.1186/1471-2164-13-371

Table 5 Novel miRNAs/new members of known miRNA families in perfect and imperfect libraries

From: High-throughput sequencing of small RNAs and analysis of differentially expressed microRNAs associated with pistil development in Japanese apricot

miRNA	Length of mature(nt)	Sequence(5′–3′)	Counts of miRNAs/miRNA*s	Location	Length of precursors(nt)	Arm	MFE (kcal/mol)
miR6257	21	TCTTAACTGTTGGATTAGGCT	22/1	scaffold_10:708566:708677:−	112	5′	−26.7
miR6258	21	TTCCAGCTGTAAAGATCAAGA	5/5	scaffold_1:230373:230544:+	172	5′	−88.7
miR6259	21	TAGAAAAATACGGGCGATAAA	6/1	scaffold_1:37406755:37406880:+	126	3′	−53.6
miR6260	21	TGGAGTGAGAGAATGGGAGGT	14/2	scaffold_1:40569695:40569796:+	102	3′	−50.4
miR6261	22	AAGTGATTATATGGAGAAGCAC	13/1	scaffold_1:46392103:46392176:+	74	3′	−26.5
miR6262	21	TCTTTAGAAAGTTAGAATTGT	5/1	scaffold_1:23904565:23904750:−	186	5′	−67
miR6263	21	AAGTGGACAAAAGGGGAGTGG	16/2	scaffold_2:16774627:16774733:+	107	3′	−24.9
miR6264	21	ATGCCTATGGACACGTGTCAA	6/1	scaffold_2:10473541:10473644:−	104	3′	−56.02
miR6265	23	TTGAACTTTGACCCGATTCGCAT	15/1	scaffold_3:13798983:13799084:+	102	5′	−36.77
miR6266a	21	TAAATGCAGGGGCAAAATGAT	149/4	scaffold_4:6953607:6953883:+	277	5′	−69.81
miR6266b	21	TAAATGCAGGGGCAAAATGAT	109/2	scaffold_4:8221370:8221603:+	234	5′	−60.63
miR6266c	21	TAAATGCAGGGGCAAAATGAT	106/1	scaffold_7:12665062:12665327:−	266	5′	−59.43
miR6267a	21	TAGAGAGGTGGTACAATTGTG	45/1	scaffold_4:9720663:9720766:+	104	3′	−69.6
miR6267b	21	ATTAGAGAGGCGGTAAACAAT	5/1	scaffold_4:13686619:13686731:−	113	3′	−35.9
miR6268	21	TGAGGAGATGGAGAGTAGATA	244/3	scaffold_4:16645739:16645874:+	136	5′	−77.7
miR6269	21	TGTGAATAGTGATTGCCATGG	18/5	scaffold_4:20136895:20136989:+	95	5′	−36.7
miR6270	21	TTCTGGTATTGGAATTTCATT	259/26	scaffold_4:30105651:30106027:+	377	3′	−117.7
miR6271	21	TCAAGATTGAGAGATATAATG	24/3	scaffold_4:8916468:8916590:−	123	3′	−34.3
miR6272	21	TAGCTGTAAATGAGTGTTTTT	5/1	scaffold_4:19289821:19289925:−	105	5′	−25.8
miR6273	21	AATGCAGCATGATTTTTTTTT	81/63	scaffold_5:3421010:3421132:+	123	3′	−42.2
miR6274	23	TATTTTGCTATCTTCGGGCAATA	15/2	scaffold_5:3414706:3414834:−	129	5′	−35.8
miR6275	22	AGTGGAAGTAGCAAGGGGAAGC	14/1	scaffold_5:10005396:10005502:−	107	3′	−67.6
miR6276	21	AAAGGCTCATACAAATATTCC	14/3	scaffold_6:8093383:8093491:−	109	5′	−21.7
miR6277	21	TGTGTGTGGAAAGAGCGAGAC	1661/5	scaffold_6:28212589:28212684:−	96	3′	−47.16
miR6278	22	TGAACCTTGTGTACAAATTGGC	16/3	scaffold_7:7789275:7789372:+	98	3′	−41.9
miR6279	21	TAGACAAGAATTCCAGAGACC	9/1	scaffold_7:16179849:16180001:+	153	3′	−31.4
miR6280	21	TTGGCAGTAAGATTTTTGGTG	15/2	scaffold_7:8897336:8897500:−	165	5′	−42.1
miR6281	21	GTTAGAGATAGAGAGAGTGAG	60/21	scaffold_8:277682:277841:+	160	5′	−86
miR6282	23	GTTGATCGATGTGGGATGTTACA	8/1	scaffold_8:11190431:11190772:+	342	5′	−93.3
miR6283	21	CAAAAGGGGAGTGGGAAAATC	33/2	scaffold_8:19627180:19627307:+	128	3′	−64.9
miR6284	21	TTTGGACCATGGATGAAGATT	5128/2	scaffold_8:20948100:20948196:+	97	3′	−31.9
miR6285	22	TAGTGAAGTTTGAATTAGGGCT	2195/3	scaffold_8:16684630:16684710:−	81	5′	−38
miR6286	23	TTTGAACCATTGGATCGTAGTTA	8/1	scaffold_14:309411:309508:−	98	5′	−21.8
miR6287	21	CAAGAAGTGGAAGTTTTGGGC	5/1	scaffold_1:17236128:17236204:−	77	5′	−31.3
miR6288	21	GAAAATGACAAGTGGCTAGTT	27/13	scaffold_2:18743450:18743549:+	100	3′	−51.3
miR6289	21	TCCTTTGAATGGTTAGGCTCA	7/1	scaffold_3:4077260:4077364:−	105	3′	−51.2
miR6290	23	TGAATGAGTTCAGAGATCGTGTA	17/12	scaffold_4:28016862:28016957:+	96	3′	−18.7
miR6291a	21	CTTACCACATTTTTATACCAT	67/1	scaffold_4:8758152:8758281:−	130	5′	−66.31
miR6291b	21	CTTACCACATTTTTATACCAT	67/4	scaffold_7:5853383:5853533:+	151	5′	−41.6
miR6292	21	TATCTTTTAATCGTTAGATCA	18/1	scaffold_4:11582347:11582421:−	75	5′	−29.99
miR6293	21	TAAGAGGCTGATGACTAAAAC	355/9	scaffold_5:2922263:2922370:+	107	5′	−59.8
miR6294	21	TGGTGTAGGCTAATCACAATC	7/1	scaffold_5:18324006:18324209:+	204	3′	−89.9
miR6295	21	GAGGACAGAAGATGATTCAGC	42/10	scaffold_6:25684504:25684833:+	330	3′	−155.3
miR6296	21	TAAGGCCCTTAGATGAGACCC	10/1	scaffold_6:28262446:28262576:+	131	3′	−56
miR6297a	23	AATAATTTTTCGTCGCGCAAAAT	10/1	scaffold_8:6395625:6395769:+	145	3′	−63.2
miR6297b	23	GATGTATTGTCGTCGCGCAAAGT	11/11	scaffold_8:2802801:2802903:−	103	3′	−54.6
miR171a	21	TGATTGAGCCGTGCCAATATC	1651/29	scaffold_3:16557250:16557364:+	115	3′	−58.4
miR171c	21	TGATTGAGCCGTGCCAATATC	1586/1	scaffold_3:21505898:21505996:−	99	3′	−46.3
miR171e	21	TTATTGAACCGGACCAATATC	10/1	scaffold_3:16557258:16557354:−	97	3′	−39.8
miR171g	21	TGATTGAGCCGTGCCAATATC	3634/3	scaffold_5:13607844:13607938:−	95	3′	−46.5
miR171h	21	TTGAGCCGCGTCAATATCTCC	1141/43	scaffold_3:16525596:16525722:+	127	3′	−44.32
miR319b	22	TAGCTGCCGAGTCATTCATCCA	71/30	scaffold_5:11602974:11603095:−	122	5′	−49.26
miR394	21	AAGCGTTTCTTACAGAGTTTA	130/4	scaffold_1:32136105:32136248:−	144	5′	−65
miR477a	21	GTTGGGGGCTCTTTTGGGACG	161/28	scaffold_3:9747726:9747847:−	122	3′	−58.5
miR477b	21	GTTGGGGGCTCTTTTGGGACG	161/28	scaffold_3:9752784:9752905:−	122	3′	−62.1
miR482a	22	TTTCCGAAACCTCCCATTCCAA	1293/75	scaffold_1:29646062:29646181:+	120	3′	−47.2
miR482b	22	CTTCCCAAACCTCCCATTCCTA	4677/518	scaffold_1:29648520:29648655:+	136	3′	−55.5
miR482c	20	GGAATGGGCTGTTTGGGATG	30342/30319	scaffold_3:10579287:10579407:+	121	5′	−63.6
miR482d	22	CCTCCCATGCCACGCATTTCTA	20734/3022	scaffold_8:10608388:10608531:−	144	3′	−59.3
miR482e	22	TTGCCTATTCCTCCCATGCCAA	210/2	scaffold_1:29646743:29646870:+	128	3′	−55
miR828	21	TCATTTCAGCAAGCAGCGTTA	1491/1	scaffold_2:25971195:25971319:−	125	3′	−55.9

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