Erratum to: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera

Mica, Erica; Piccolo, Viviana; Delledonne, Massimo; Ferrarini, Alberto; Pezzotti, Mario; Casati, Cesare; Del Fabbro, Cristian; Valle, Giorgio; Policriti, Alberto; Morgante, Michele; Pesole, Graziano; Pè, M Enrico; Horner, David S

doi:10.1186/1471-2164-11-109

Table 1 Expression of mature- and pre-miRNAs in Vitis vinifera

From: Erratum to: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera

miRNA	Sequence	Expression data				miRNA	Sequence	Expression data
		A	B	C	D			A	B	C	D
MIR156A	UGACAGAAGAGAGGGAGCAC	0*	____	N	__I___	MIR171G	UUGAGCCGAACCAAUAUCACC	0	__RC	N	RLI*___
MIR156B	UGACAGAAGAGAGUGAGCAC	34	___C	N	______	MIR172A	UGAGAAUCUUGAUGAUGCUGCAUC	4	_S_C	N	______
MIR156C	UGACAGAAGAGAGUGAGCAC	34	____	N	______	MIR172B	UGAGAAUCUUGAUGAUGCUGCAUC	4	____	N	______
MIR156D	UGACAGAAGAGAGUGAGCAC	34*	LSRC	N	______	MIR172D	AGAAUCUUGAUGAUGCUGCAU	0	____	N	_LIBgBv_
MIR156E	UGACAGAGGAGAGUGAGCAC	0	____	N	______	MIR172C	GGAAUCUUGAUGAUGCUGCAG	0	____	N	_LIBgBv_
MIR156F	UUGACAGAAGAUAGAGAGCAC	926	_S__	N	RLIBgBvBm	MIR319B	UUGGACUGAAGGGAGCUCCCU	1	____	N	RLIBgBvBm
MIR156G	UUGACAGAAGAUAGAGAGCAC	923*	LS_C	N	RLIBgBvBm*	MIR319C	UUGGACUGAAGGGAGCUCCCU	1	_S__	N	RLIBgBvBm
MIR156I	UUGACAGAAGAUAGAGAGCAC	923*	_S__	N	RLIBg*BvBm	MIR319E	UUUGGACUGAAGGGAGCUCCU	0	_S_C	Y	RLIBgBvBm
MIR156H	UGACAGAAGAGAGAGAGCAU	0	LS__	Y	______	MIR319G	UUGGACUGAAGGGAGCUCCCA	2	___C	N	RLIBgBvBm
MIR159A	CUUGGAGUGAAGGGAGCUCUC	0	____	N	RLIBgBvBm	MIR319F	UUGGACUGAAGGGAGCUCCCU	1	_S__	N	RLIBgBvBm*
MIR159B	CUUGGAGUGAAGGGAGCUCUC	0	____	N	RLIBgBvBm	MIR390	AAGCUCAGGAGGGAUAGCGCC	1	_S__	N	RLIBgBvBm
MIR159C	UUUGGAUUGAAGGGAGCUCUA	173	LSRC	N	RLIBgBvBm	MIR393A	UCCAAAGGGAUCGCAUUGAUC	1	____	Y	RLIBgBvBm
MIR160A	UGCCUGGCUCCCUGAAUGCCAUC	1	____	N	RLIBgBvBm*	MIR393B	UCCAAAGGGAUCGCAUUGAUC	1	LS__	Y	RLIBgBvBm
MIR160B	UGCCUGGCUCCCUGAAUGCCAUC	1	____	Y	RLIBgBvBm	MIR394A	UUGGCAUUCUGUCCACCUCCAU	1	_S__	N	______
MIR160E	UGCCUGGCUCCCUGAAUGCCAUC	1	____	Y	RLIBgBvBm	MIR394B	UUGGCAUUCUGUCCACCUCC	0	LS_C	N	______
MIR160C	UGCCUGGCUCCCUGUAUGCCA	2*	_SRC	N	RLIBgBvBm*	MIR394C	UUGGCAUUCUGUCCACCUCCAU	2	____	N	______
MIR160D	UGCCUGGCUCCCUGUAUGCCA	2	____	N	RLIBgBvBm	MIR395A	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR160F	UGCCUGGCUCCCUGUAUGCCA	2	____	N	RLIBgBv*Bm	MIR395B	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR162	UCGAUAAACCUCUGCAUCCAG	5	LS_C	Y	RLIBgBvBm	MIR395C	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLI*BgBvBm
MIR164A	UGGAGAAGCAGGGCACGUGCA	7	____	N	RLIBg__	MIR395D	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR164C	UGGAGAAGCAGGGCACGUGCA	7	L___	N	RLIBg__	MIR395E	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR164D	UGGAGAAGCAGGGCACGUGCA	7	____	N	RLIBg__	MIR395F	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR164B	UGGAGAAGCAGGGCACAUGCU	0	____	N	_LI*Bg__	MIR395L	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR166A	UCGGACCAGGCUUCAUUCC	43*	LSRC	Y	RLIBgBvBm	MIR395M	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR166B	UCGGACCAGGCUUCAUUCC	43*	LS__	N	RLIBgBvBm	MIR395G	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR166C	UCGGACCAGGCUUCAUUCCCC	63*	LSRC	N	RLIBgBvBm	MIR395H	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR166D	UCGGACCAGGCUUCAUUCCCC	63	_S__	N	RLIBgBvBm	MIR395I	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR166E	UCGGACCAGGCUUCAUUCCCC	63*	_SRC	N	RLIBgBvBm*	MIR395J	CUGAAGUGUUUGGGGGAACUC	0	_S__	N	RLIBgBvBm
MIR166F	UCGGACCAGGCUUCAUUCCCC	63*	____	N	RLIBgBvBm	MIR395K	CUGAAGUGUUUGGGGGAACUC	0	____	N	RLIBgBvBm
MIR166G	UCGGACCAGGCUUCAUUCCCC	63*	____	N	RLIBgBvBm*	MIR395N	CUGAAGAGUCUGGAGGAACUC	0	____	N	_L____
MIR166H	UCGGACCAGGCUUCAUUCCCC	63	_S_C	N	RLIBgBvBm	MIR396B	UUCCACAGCUUUCUUGAACU	0*	LS_C	N	RL_Bg__
MIR167A	UGAAGCUGCCAGCAUGAUCUG	0*	L_RC	N	RLIBgBvBm	MIR396A	UUCCACAGCUUUCUUGAACUA	0	_S__	N	RL_Bg__
MIR167B	UGAAGCUGCCAGCAUGAUCUA	25	L__C	Y	RLIBgBvBm	MIR396C	UUCCACAGCUUUCUUGAACUG	0	____	N	RL_Bg__
MIR167C	UGAAGCUGCCAGCAUGAUCUC	0	____	N	RLIBgBvBm	MIR396D	UUCCACAGCUUUCUUGAACUG	0	_S_C	N	RL_Bg__
MIR167D	UGAAGCUGCCAGCAUGAUCUA	6	LS__	N	RLIBgBvBm	MIR397A	UCAUUGAGUGCAGCGUUGAUG	2*	LS_C	N	R__Bg__
MIR167E	UGAAGCUGCCAGCAUGAUCUA	30	____	N	RLIBgBvBm	MIR397B	UCAUUGAGUGCAGCGUUGAUG	2*	____	N	R__Bg__
MIR168	UCGCUUGGUGCAGGUCGGGAA	3*	LSRC	Y	RLIBgBvBm	MIR398A	UGUGUUCUCAGGUCACCCCUU	0	_SRC	N	RL_Bg__
MIR169B	UGAGCCAAGGAUGGCUUGCCG	0	____	N	_L__BvBm	MIR398B	UGUGUUCUCAGGUCGCCCCUG	2	LSRC	N	R__Bg__
MIR169H	UGAGCCAAGGAUGGCUUGCCG	0	____	N	_L__ BvBm	MIR398C	UGUGUUCUCAGGUCGCCCCUG	2*	LSRC	N	R__Bg__
MIR169A	CAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm	MIR399A	UGCCAAAGGAGAAUUGCCCUG	0	L___	N	R_I___
MIR169C	CAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm	MIR399H	UGCCAAAGGAGAAUUGCCCUG	0	L___	N	R_I___
MIR169J	CAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm	MIR399B	UGCCAAAGGAGAGUUGCCCUG	0	____	N	R__Bg_Bm
MIR169K	CAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm	MIR399C	UGCCAAAGGAGAGUUGCCCUG	0	____	N	R__Bg_Bm
MIR169S	CAGCCAAGGAUGACUUGCCGG	0	____	N	_LI*BgBvBm	MIR399I	CGCCAAAGGAGAGUUGCCCUG	1	L_RC	N	R__Bg_Bm
MIR169W	CAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm	MIR399D	UGCCAAAGGAGAUUUGCUCGU	0	____	N	______
MIR169L	GAGCCAAGGAUGACUUGCCGU	0	____	N	_LIBgBvBm	MIR399E	UGCCAAAGGAGAUUUGCCCGG	0	___C	N	______
MIR169M	GAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm*	MIR399F	UGCCGAAGGAGAUUUGUCCUG	0	____	N	______
MIR169N	GAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm*	MIR399G	UGCCAAAGGAGAUUUGCCCCU	0	____	N	R_I__Bm
MIR169O	GAGCCAAGGAUGACUUGCCGC	0	____	N	_LIBgBvBm	MIR403A	UUAGAUUCACGCACAAACUCG	4*	____	N	RLIBgBvBm
MIR169P	GAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm	MIR403B	UUAGAUUCACGCACAAACUCG	4	____	N	RLIBgBvBm
MIR169Q	GAGCCAAGGAUGACUUGCCGG	0	____	N	_LIBgBvBm	MIR403C	UUAGAUUCACGCACAAACUCG	4*	___C	N	RLIBgBvBm
MIR169E	UAGCCAAGGAUGACUUGCCUGC	1	L___	N	_LIBgBvBm	MIR403D	UUAGAUUCACGCACAAACUCG	4	____	N	RLIBgBvBm
MIR169F	CAGCCAAGGAUGACUUGCCGA	0	___C	N	_LIBgBvBm*	MIR403E	UUAGAUUCACGCACAAACUCG	4*	____	N	RLIBgBvBm
MIR169G	CAGCCAAGGAUGACUUGCCGA	0	_S__	N	_LIBgBvBm	MIR403F	UUAGAUUCACGCACAAACUCG	4*	_SRC	N	RLIBgBvBm
MIR169R	UGAGUCAAGGAUGACUUGCCG	0	____	N	_LIBgBvBm*	MIR408	AUGCACUGCCUCUUCCCUGGC	6*	LSRC	Y	RLIBgBvBm
MIR169T	CGAGUCAAGGAUGACUUGCCG	0	____	N	_LIBgBvBm*	MIR477	AUCUCCCUCAAAGGCUUCCAA	0	____	N	___BgBvBm
MIR169U	UGAGUCAAGGAUGACUUGCCG	0	____	N	_LIBgBvBm*	MIR479	UGUGGUAUUGGUUCGGCUCAUC	2*	____	N	______
MIR169V	aAGCCAAGGAUGAAUUGCCGG	0	____	N	__IBg__	MIR482	UCUUUCCUACUCCUCCCAUUCC	5*	LSRC	Y	______
MIR169X	UAGCCAAGGAUGACUUGCCUA	0	____	Y	_LIBgBvBm	MIR535A	UGACAACGAGAGAGAGCACGC	42*	____	Y	RLIBgBvBm
MIR169Y	UAGCGAAGGAUGACUUGCCUA	0	____	N	__I___	MIR535B	UGACAACGAGAGAGAGCACGC	80*	____	Y	RLIBgBvBm
MIR169I	GAGCCAAGGAUGACUGGCCGU	0	____	N	_L_Bg__	MIR535C	UGACAACGAGAGAGAGCACGC	80*	____	Y	RLIBgBvBm
MIR169D	CAGCCAAGAAUGAUUUGCCGG	0	____	N	______	MIR535D	UGACAACGAGAGAGAGCACGC	80*	____	Y	RLIBgBvBm
MIR171B	UGAUUGAGCCGCGUCAAUAUC	0	____	N	R_____	MIR535E	UGACAACGAGAGAGAGCACGC	80*	____	Y	RLIBgBvBm
MIR171C	UGAUUGAGCCGUGCCAAUAUC	4	____	N	RLIBg__	MIR828A	UCUUGCUCAAAUGAGUAUUCCA	0	____	N	______
MIR171D	UGAUUGAGCCGUGCCAAUAUC	4	____	N	RLIBg__	MIR828B	UCUUGCUCAAAUGAGUGUUCCA	0	____	N	______
MIR171A	UGAUUGAGCCGUGCCAAUAUC	4	_SRC	Y	RLIBg__	MIR845A	UAGCUCUGAUACCAAUUGAUA	0	____	N	______
MIR171I	UGAUUGAGCCGUGCCAAUAUC	4	____	N	RLIBg__	MIR845B	UAGCUCUGAUACCAAUUGAUA	0	____	N	______
MIR171E	UGAUUGAGCCGCGCCAAUAUC	0	___C	N	RLIBgBvBm*	MIR845C	AGGCUCUGAUACCAAUUGAUG	0	____	N	______
MIR171H	UGGUUGAGCCGCGCCAAUAUC	0	____	N	RLIBgBvBm	MIR845D	UGGCUCUGAUACCAAUUGAUG	0	____	N	______
MIR171F	UUGAGCCGCGCCAAUAUCACU	0	_S__	N	RLIBgBv_	MIR845E	UGGCUCUGAUACCAAUUGAUG	0	____	N	______

For each predicted pre-miRNA the table reports: the mature sequence, the number of perfect matching or oligoadenylated short RNA reads observed in leaf, asterisks indicate that corresponding miRNA* sequences were also recovered by deep sequencing (column A), tissues in which significant expression of the precursor was observed by Illumina whole transcriptome sequencing (column B, where L = leaf, R = root, S = stem, C = callus), the presence of 454 reads including the precursor sequence in leaf (column C, where Y = yes, N = no), and tissues where the Combimatrix oligoarray showed significant expression of the mature sequence (column D, where L = leaf, I = inflorescence, R = root, Bg = immature berry, Bv = veraison, Bm = mature berry). Asterisks indicate signal detected for precursor in that tissue. Mature miRNAs are ordered to reflect expected cases of crosshybridization for oligonucleotide arrays. For all microRNAs, chromosome, strand and coordinates of the precursor miRNA are provided (scaffold coordinates indicate that the miRNA was situated on a scaffold not incorporated into the 8.4× genome assembly).

Back to article page

ISSN: 1471-2164

Contact us

Submission enquiries: bmcgenomics@biomedcentral.com
General enquiries: ORSupport@springernature.com

BMC Genomics

Contact us