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BaseInfo

ncRNA ID novel_zma_miR5504
Species Zea mays
Class miRNA
Genome position Chr7:107895118-107895331 [-]
Reference genome RefGen_v4
Source SRR2638137;SRR2647389;SRR2647390;SRR2647391
Length 24
Mature sequence(if miRNA) 191 - GGGCUUGUUCGUUUACGUCGGAUU - 214
Stem-loop(if miRNA) --                             C                                                                      G  CC
  GGGCUUGUUCGUUUACGUCGGAUUGCACC GGAAUCGUUCCAGCUAAUCAAAGUUUAUAUAAAUUAGAGAAACAAUCCGGCUAGGAAUCGUUCCGACCCA UA  G
  ||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
  CCCGAACAAGCAAAUGCAGCCUAACGUGG CCUUAGCAAGGUCGAUUAGUUUCAAAUAUAUUUAAUCUCUUUGUUAGGCCGAUCCUUAGCAAGGCUGGGU GU  G
UU                             A                                                                      G  UA
Stem-loop sequence GGGCUUGUUCGUUUACGUCGGAUUGCACCCGGAAUCGUUCCAGCUAAUCAAAGUUUAUAUAAAUUAGAGAAACAAUCCGGCUAGGAAUCGUUCCGACCCAGUACCGGAUUGGUGGGUCGGAACGAUUCCUAGCCGGAUUGUUUCUCUAAUUUAUAUAAACUUUGAUUAGCUGGAACGAUUCCAGGUGCAAUCCGACGUAAACGAACAAGCCCUU

Targets Info

Target Acc Alignment Exception Target Description Target Gene Name Target Type Method
EZ056395.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  ||||||||||||||||||||||||
targets:137   AAUCCGACGUAAACGAACAAGCCC   160

0.0 TSA: Zea mays contig57517, mRNA sequence NA coding protein psRNATarget
LQ238081.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:110   AAUCCGACGUAAACGAACAAGGCC   133

1.5 Sequence 4076 from Patent EP2985353 NA coding protein psRNATarget
HI405951.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:110   AAUCCGACGUAAACGAACAAGGCC   133

1.5 Sequence 4076 from Patent EP2074227 NA coding protein psRNATarget
JB166412.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:110   AAUCCGACGUAAACGAACAAGGCC   133

1.5 Sequence 4076 from Patent EP2559767 NA coding protein psRNATarget
JB166368.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*||||||||||||||
targets:114   AAUCCGACGCAAACGAACAAGCCC   137

1.0 Sequence 4032 from Patent EP2559767 NA coding protein psRNATarget
LQ238037.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*||||||||||||||
targets:114   AAUCCGACGCAAACGAACAAGCCC   137

1.0 Sequence 4032 from Patent EP2985353 NA coding protein psRNATarget
HI405907.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*||||||||||||||
targets:114   AAUCCGACGCAAACGAACAAGCCC   137

1.0 Sequence 4032 from Patent EP2074227 NA coding protein psRNATarget
HI405897.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:115   AAUCCGACGUAAACGAACAAGGCC   138

1.5 Sequence 4022 from Patent EP2074227 NA coding protein psRNATarget
LQ238027.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:115   AAUCCGACGUAAACGAACAAGGCC   138

1.5 Sequence 4022 from Patent EP2985353 NA coding protein psRNATarget
JB166358.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:115   AAUCCGACGUAAACGAACAAGGCC   138

1.5 Sequence 4022 from Patent EP2559767 NA coding protein psRNATarget
BT019200.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*||||||||||||||
targets:1044   AAUCCGACGCAAACGAACAAGCCC   1067

1.0 Zea mays clone Contig873.F mRNA sequence NA coding protein psRNATarget
XM_008653755.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:432   AAUCCGACGUAAACGAACAAGGCC   455

1.5 PREDICTED: Zea mays uncharacterized LOC103631908 (LOC103631908), transcript variant X3, mRNA NA coding protein psRNATarget
XM_020541330.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:514   AAUCCGACGUAAACGAACAAGGCC   537

1.5 PREDICTED: Zea mays uncharacterized LOC103631908 (LOC103631908), transcript variant X4, mRNA NA coding protein psRNATarget
XM_008653754.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:696   AAUCCGACGUAAACGAACAAGGCC   719

1.5 PREDICTED: Zea mays uncharacterized LOC103631908 (LOC103631908), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008653753.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||||||||||||||*||
targets:898   AAUCCGACGUAAACGAACAAGGCC   921

1.5 PREDICTED: Zea mays uncharacterized LOC103631908 (LOC103631908), transcript variant X1, mRNA NA coding protein psRNATarget
XM_008647453.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*||||||||||||||
targets:3373   AAUCCGACGCAAACGAACAAGCCC   3396

1.0 PREDICTED: Zea mays uncharacterized LOC103627145 (LOC103627145), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008647452.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*||||||||||||||
targets:3361   AAUCCGACGCAAACGAACAAGCCC   3384

1.0 PREDICTED: Zea mays uncharacterized LOC103627145 (LOC103627145), transcript variant X1, mRNA NA coding protein psRNATarget
LQ238091.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:112   AAUCCGAUGUAAACGAACAAGGCC   135

2.5 Sequence 4086 from Patent EP2985353 NA coding protein psRNATarget
JB166422.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:112   AAUCCGAUGUAAACGAACAAGGCC   135

2.5 Sequence 4086 from Patent EP2559767 NA coding protein psRNATarget
HI405961.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:112   AAUCCGAUGUAAACGAACAAGGCC   135

2.5 Sequence 4086 from Patent EP2074227 NA coding protein psRNATarget
JB166389.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4053 from Patent EP2559767 NA coding protein psRNATarget
LQ238058.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4053 from Patent EP2985353 NA coding protein psRNATarget
HI405931.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4056 from Patent EP2074227 NA coding protein psRNATarget
LQ238061.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4056 from Patent EP2985353 NA coding protein psRNATarget
JB166392.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4056 from Patent EP2559767 NA coding protein psRNATarget
HI405934.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4059 from Patent EP2074227 NA coding protein psRNATarget
LQ238064.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4059 from Patent EP2985353 NA coding protein psRNATarget
JB166395.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4059 from Patent EP2559767 NA coding protein psRNATarget
HI405928.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:113   AAUCCGAUGUAAACGAACAAGGCC   136

2.5 Sequence 4053 from Patent EP2074227 NA coding protein psRNATarget
JB166371.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4035 from Patent EP2559767 NA coding protein psRNATarget
HI405910.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4035 from Patent EP2074227 NA coding protein psRNATarget
JB166366.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4030 from Patent EP2559767 NA coding protein psRNATarget
LQ238035.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4030 from Patent EP2985353 NA coding protein psRNATarget
LQ238040.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4035 from Patent EP2985353 NA coding protein psRNATarget
HI405905.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4030 from Patent EP2074227 NA coding protein psRNATarget
LQ238036.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4031 from Patent EP2985353 NA coding protein psRNATarget
JB166367.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4031 from Patent EP2559767 NA coding protein psRNATarget
HI405906.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:114   AAUCCGAUGUAAACGAACAAGGCC   137

2.5 Sequence 4031 from Patent EP2074227 NA coding protein psRNATarget
EU965933.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:5   AAUCCGAUGUAAACGAACAAGGCC   28

2.5 Zea mays clone 290117 NAD(P)H-dependent oxidoreductase mRNA, complete cds NA coding protein psRNATarget
XM_020549360.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:1160   AAUCCGAUGUAAACGAACAAGGCC   1183

2.5 PREDICTED: Zea mays WRKY transcription factor WRKY76 (LOC103647425), mRNA NA coding protein psRNATarget
NM_001196885.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:1290   AAUCCGAUGUAAACGAACAAGGCC   1313

2.5 Zea mays Protein kinase superfamily protein (LOC100502407), mRNA NA coding protein psRNATarget
BT088026.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:1290   AAUCCGAUGUAAACGAACAAGGCC   1313

2.5 Zea mays full-length cDNA clone ZM_BFb0366I22 mRNA, complete cds NA coding protein psRNATarget
XM_020539404.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:3528   AAUCCGAUGUAAACGAACAAGGCC   3551

2.5 PREDICTED: Zea mays Protein kinase superfamily protein (LOC100502407), transcript variant X5, mRNA NA coding protein psRNATarget
XM_020539406.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:3546   AAUCCGAUGUAAACGAACAAGGCC   3569

2.5 PREDICTED: Zea mays Protein kinase superfamily protein (LOC100502407), transcript variant X6, mRNA NA coding protein psRNATarget
XM_020539386.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:3563   AAUCCGAUGUAAACGAACAAGGCC   3586

2.5 PREDICTED: Zea mays Protein kinase superfamily protein (LOC100502407), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020539392.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:3581   AAUCCGAUGUAAACGAACAAGGCC   3604

2.5 PREDICTED: Zea mays Protein kinase superfamily protein (LOC100502407), transcript variant X2, mRNA NA coding protein psRNATarget
XM_020539417.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||=|||||||||||||*||
targets:3831   AAUCCGAUGUAAACGAACAAGGCC   3854

2.5 PREDICTED: Zea mays Protein kinase superfamily protein (LOC100502407), transcript variant X9, mRNA NA coding protein psRNATarget
JB169205.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:113   AAUCCGACGGAAACGAACAAGGCC   136

2.5 Sequence 6869 from Patent EP2559767 NA coding protein psRNATarget
HI408744.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:113   AAUCCGACGGAAACGAACAAGGCC   136

2.5 Sequence 6869 from Patent EP2074227 NA coding protein psRNATarget
LQ240874.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:113   AAUCCGACGGAAACGAACAAGGCC   136

2.5 Sequence 6869 from Patent EP2985353 NA coding protein psRNATarget
JB166550.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:114   AAUCCGACGGAAACGAACAAGGCC   137

2.5 Sequence 4214 from Patent EP2559767 NA coding protein psRNATarget
HI406089.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:114   AAUCCGACGGAAACGAACAAGGCC   137

2.5 Sequence 4214 from Patent EP2074227 NA coding protein psRNATarget
LQ238219.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:114   AAUCCGACGGAAACGAACAAGGCC   137

2.5 Sequence 4214 from Patent EP2985353 NA coding protein psRNATarget
EU949492.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:348   AAUCCGACGGAAACGAACAAGGCC   371

2.5 Zea mays clone 420421 mRNA sequence NA coding protein psRNATarget
EU948349.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:586   AAUCCGACGGAAACGAACAAGGCC   609

2.5 Zea mays clone 373385 mRNA sequence NA coding protein psRNATarget
BT017859.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:1036   AAUCCGACGGAAACGAACAAGGCC   1059

2.5 Zea mays clone EL01N0511E01.c mRNA sequence NA coding protein psRNATarget
NM_001155337.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:1418   AAUCCGACGGAAACGAACAAGGCC   1441

2.5 Zea mays protein recA (LOC100282426), mRNA NA coding protein psRNATarget
EU960853.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:1419   AAUCCGACGGAAACGAACAAGGCC   1442

2.5 Zea mays clone 229066 protein recA mRNA, complete cds NA coding protein psRNATarget
XM_020538339.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:469   AAUCCGACGGAAACGAACAAGGCC   492

2.5 PREDICTED: Zea mays uncharacterized vacuolar membrane protein YML018C-like (LOC109939916), transcript variant X1, mRNA NA coding protein psRNATarget
BT066418.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:1696   AAUCCGACGGAAACGAACAAGGCC   1719

2.5 Zea mays full-length cDNA clone ZM_BFc0124A04 mRNA, complete cds NA coding protein psRNATarget
NM_001175825.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:1696   AAUCCGACGGAAACGAACAAGGCC   1719

2.5 Zea mays putative DEAD-box ATP-dependent RNA helicase family protein (LOC100383160), mRNA NA coding protein psRNATarget
NM_001153653.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:2613   AAUCCGACGGAAACGAACAAGGCC   2636

2.5 Zea mays ATP-binding cassette sub-family G member 2 (LOC100280733), mRNA NA coding protein psRNATarget
EU953449.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  |||||||||*|||||||||||*||
targets:2613   AAUCCGACGGAAACGAACAAGGCC   2636

2.5 Zea mays clone 1412735 ATP-binding cassette sub-family G member 2 mRNA, complete cds NA coding protein psRNATarget
XM_008645519.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  =||||||||*||||||||||*|||
targets:1   GAUCCGACGCAAACGAACAAUCCC   24

2.5 PREDICTED: Zea mays N-acetyltransferase (cl33241_1), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008675786.2
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  ||||*|||*||||||||||*||||
targets:5412   AAUCAGACAUAAACGAACAUGCCC   5435

2.5 PREDICTED: Zea mays protein GFS12 (LOC103650138), transcript variant X3, mRNA NA coding protein psRNATarget
XM_008645517.2
ncRNA:22   AGGCUGCAUUUGCUUGUUCGGG   1
  |||||||*||||||||||*|||
targets:1   UCCGACGCAAACGAACAAUCCC   22

2.5 PREDICTED: Zea mays N-acetyltransferase (cl33241_1), transcript variant X1, mRNA NA coding protein psRNATarget
LQ238926.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  =||=-||=||||*|||||||||||
targets:117   GAUU-GAUGUAACCGAACAAGCCC   139

2.5 Sequence 4921 from Patent EP2985353 NA coding protein psRNATarget
HI406796.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  =||=-||=||||*|||||||||||
targets:117   GAUU-GAUGUAACCGAACAAGCCC   139

2.5 Sequence 4921 from Patent EP2074227 NA coding protein psRNATarget
JB167257.1
ncRNA:24   UUAGGCUGCAUUUGCUUGUUCGGG   1
  =||=-||=||||*|||||||||||
targets:117   GAUU-GAUGUAACCGAACAAGCCC   139

2.5 Sequence 4921 from Patent EP2559767 NA coding protein psRNATarget