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BaseInfo

ncRNA ID vvi-miR159c
Species Vitis vinifera
Class miRNA
Genome position chr17:2609205-2609394 [-]
Reference genome Genoscope-20100122
Source miRBase
Length 21
Mature sequence(if miRNA) 11 - UUUGGAUUGAAGGGAGCUCUA - 31
Stem-loop(if miRNA) --UUUU  A            GA       UA        -U   -      AU  -    G    CU    G UC      C       --C   AA
      GG GUGGAGCUCCUU  AGUCCAA  GAGGGUCU  ACU GGGUAG  UG AGCU CUGA  UAUG A  CCACAG CCUAUCC   GUC  U
      || ||||||||||||  |||||||  ||||||||  ||| ||||||  || |||| ||||  |||| |  |||||| |||||||   |||  G
      CC CAUCUCGAGGGA  UUAGGUU  UUCCUAGA  UGA CCUAUU  AC UCGA GACU  AUAC U  GGUGUU GGAUAGG   CGG  G
CUCUCU  A            AG       UG        UU   A      --  G    G    CU    G UC      C       UUA   GG
Stem-loop sequence UUUUGGAGUGGAGCUCCUUGAAGUCCAAUAGAGGGUCUUACUGGGUAGAUUGAGCUGCUGACUUAUGGAUCCCACAGCCCUAUCCCGUCAAUGGGGGGCAUUGGAUAGGCUUGUGGCUUGCAUAUCUCAGGAGCUGCAUUAUCCAAGUUUAGAUCCUUGUUUGGAUUGAAGGGAGCUCUACACCUCUCUC

Targets Info

Target Acc Alignment Exception Target Description Target Gene Name Target Type Method
KX639825.1
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:957   UGGAGCUCCCUUCACUCCAAU   977

2.5 UNVERIFIED: Vitis vinifera GAMYB-like mRNA, complete sequence NA coding protein psRNATarget
XM_019217706.1
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1076   UGGAGCUCCCUUCACUCCAAU   1096

2.5 PREDICTED: Vitis vinifera transcription factor GAMYB (LOC100248959), transcript variant X7, mRNA NA coding protein psRNATarget
XM_019217705.1
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1430   UGGAGCUCCCUUCACUCCAAU   1450

2.5 PREDICTED: Vitis vinifera transcription factor GAMYB (LOC100248959), transcript variant X6, mRNA NA coding protein psRNATarget
XM_019217704.1
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1437   UGGAGCUCCCUUCACUCCAAU   1457

2.5 PREDICTED: Vitis vinifera transcription factor GAMYB (LOC100248959), transcript variant X5, mRNA NA coding protein psRNATarget
KA143670.1
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1423   UGGAGCUCCCUUCACUCCAAU   1443

2.5 TSA: Vitis vinifera Locus_3605_Transcript_9/9_Confidence_0.444.Vivi mRNA sequence NA coding protein psRNATarget
XM_010647229.2
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1482   UGGAGCUCCCUUCACUCCAAU   1502

2.5 PREDICTED: Vitis vinifera transcription factor GAMYB (LOC100248959), transcript variant X4, mRNA NA coding protein psRNATarget
XM_010647226.2
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1489   UGGAGCUCCCUUCACUCCAAU   1509

2.5 PREDICTED: Vitis vinifera transcription factor GAMYB (LOC100248959), transcript variant X3, mRNA NA coding protein psRNATarget
XM_002275810.4
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1749   UGGAGCUCCCUUCACUCCAAU   1769

2.5 PREDICTED: Vitis vinifera transcription factor GAMYB (LOC100248959), transcript variant X1, mRNA NA coding protein psRNATarget
XM_010647228.2
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  |=||||||||||||*|||||*
targets:1818   UGGAGCUCCCUUCACUCCAAU   1838

2.5 PREDICTED: Vitis vinifera transcription factor GAMYB (LOC100248959), transcript variant X2, mRNA NA coding protein psRNATarget
XM_010657187.2
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  ||||||*||||||||*|||||
targets:1029   UAGAGCACCCUUCAAACCAAA   1049

2.5 PREDICTED: Vitis vinifera uncharacterized LOC104880484 (LOC104880484), mRNA NA coding protein psRNATarget
KA154464.1
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  ||||||*||||||||*|||||
targets:842   UAGAGCCCCCUUCAAACCAAA   862

2.5 TSA: Vitis vinifera Locus_1556_Transcript_1/1_Confidence_1.000.Vivi mRNA sequence NA coding protein psRNATarget
XM_010645844.2
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  ||||||*||||||||*|||||
targets:1400   UAGAGCCCCCUUCAAACCAAA   1420

2.5 PREDICTED: Vitis vinifera protein SPEAR2 (LOC104877499), transcript variant X2, mRNA NA coding protein psRNATarget
XM_019216918.1
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  ||||||*||||||||*|||||
targets:1315   UAGAGCCCCCUUCAAACCAAA   1335

2.5 PREDICTED: Vitis vinifera protein SPEAR2 (LOC104877499), transcript variant X1, mRNA NA coding protein psRNATarget
XM_002277967.3
ncRNA:21   AUCUCGAGGGAAGUUAGGUUU   1
  *||||||||||||||*||||*
targets:1975   CAGAGCUCCCUUCAAGCCAAU   1995

2.5 PREDICTED: Vitis vinifera protein ODORANT1 (LOC100262343), mRNA NA coding protein psRNATarget

Reference

1 PMID:17721507
"The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla";
Jaillon O, Aury JM, Noel B, Policriti A, Clepet C, Casagrande A, Choisne N, Aubourg S, Vitulo N, Jubin C, Vezzi A, Legeai F, Hugueney P, Dasilva C, Horner D, Mica E, Jublot D, Poulain J, Bruyere C, Billault A, Segurens B, Gouyvenoux M, Ugarte E, Cattonaro F, Anthouard V, Vico V, Del Fabbro C, Alaux M, Di Gaspero G, Dumas V, Felice N, Paillard S, Juman I, Moroldo M, Scalabrin S, Canaguier A, Le Clainche I, Malacrida G, Durand E, Pesole G, Laucou V, Chatelet P, Merdinoglu D, Delledonne M, Pezzotti M, Lecharny A, Scarpelli C, Artiguenave F, Pe ME, Valle G, Morgante M, Caboche M, Adam-Blondon AF, Weissenbach J, Quetier F, Wincker P;
Nature. 449:463-467(2007).
2 PMID:19939267
"High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera";
Mica E, Piccolo V, Delledonne M, Ferrarini A, Pezzotti M, Casati C, Del Fabbro C, Valle G, Policriti A, Morgante M, Pesole G, Pe ME, Horner DS;
BMC Genomics. 10:558(2009).
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