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BaseInfo

ncRNA ID novel_zma_miR3268
Species Zea mays
Class miRNA
Genome position Chr5:34954604-34954692 [-]
Reference genome RefGen_v4
Source SRR2089715
Length 24
Mature sequence(if miRNA) 66 - CAUGUAGAUUGAGUGAGAUUGGGU - 89
Stem-loop(if miRNA) --CAU                    UG  U     UUUU    AA
     GUAGAUUGAGUGAGAUUGGG  GG UUAAA    AAGU  G
     ||||||||||||||||||||  || |||||    ||||  U
     UAUUUAACUUACUCUAAUUU  UU AAUUU    UUCA  C
AUGGG                    UU  U     --UU    AA
Stem-loop sequence CAUGUAGAUUGAGUGAGAUUGGGUGGGUUUAAAUUUUAAGUAAGUCAAACUUUUUUUAAUUUUUUUUAAUCUCAUUCAAUUUAUGGGUA

Targets Info

Target Acc Alignment Exception Target Description Target Gene Name Target Type Method
AY112141.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=|=||||||||||||||||||||
targets:229   AUCUAAUCUCACUCAAUCUACAUG   252

0.0 Zea mays CL24213_1 mRNA sequence NA coding protein psRNATarget
XM_020546136.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |||||||=*|||||||||||||||
targets:3280   ACCCAAUUCCACUCAAUCUACAUG   3303

2.0 PREDICTED: Zea mays protein FAR1-RELATED SEQUENCE 6 (LOC103642139), transcript variant X2, mRNA NA coding protein psRNATarget
XM_020546135.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |||||||=*|||||||||||||||
targets:3133   ACCCAAUUCCACUCAAUCUACAUG   3156

2.0 PREDICTED: Zea mays protein FAR1-RELATED SEQUENCE 6 (LOC103642139), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020549703.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:2349   AUCCAAUCUCACUCAAUCCACAUG   2372

1.5 PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020549704.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:2289   AUCCAAUCUCACUCAAUCCACAUG   2312

1.5 PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008674604.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:2282   AUCCAAUCUCACUCAAUCCACAUG   2305

1.5 PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X3, mRNA NA coding protein psRNATarget
EU956718.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:2154   AUCCAAUCUCACUCAAUCCACAUG   2177

1.5 Zea mays clone 1571610 protein kinase domain containing protein mRNA, complete cds NA coding protein psRNATarget
NM_001154362.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:2153   AUCCAAUCUCACUCAAUCCACAUG   2176

1.5 Zea mays protein kinase domain containing protein (LOC100281444), mRNA NA coding protein psRNATarget
BT063416.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:2081   AUCCAAUCUCACUCAAUCCACAUG   2104

1.5 Zea mays full-length cDNA clone ZM_BFc0061L20 mRNA, complete cds NA coding protein psRNATarget
NM_001174368.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  ||=|||||||||||||||*|||||
targets:1444   ACUCAAUCUCACUCAAUCCACAUG   1467

1.5 Zea mays hypothetical protein (LOC100381539), mRNA NA coding protein psRNATarget
BT061560.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  ||=|||||||||||||||*|||||
targets:1444   ACUCAAUCUCACUCAAUCCACAUG   1467

1.5 Zea mays full-length cDNA clone ZM_BFb0158C09 mRNA, complete cds NA coding protein psRNATarget
EU948930.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |||||||=*|||||||||||||||
targets:421   ACCCAAUUCCACUCAAUCUACAUG   444

2.0 Zea mays clone 390579 mRNA sequence NA coding protein psRNATarget
BT062183.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:247   AUCCAAUCUCACUCAAUCCACAUG   270

1.5 Zea mays full-length cDNA clone ZM_BFb0224O15 mRNA, complete cds NA coding protein psRNATarget
BT086633.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:456   AUCCAAUCUCACUCAAUCCACAUG   479

1.5 Zea mays full-length cDNA clone ZM_BFa0068P14 mRNA, complete cds NA coding protein psRNATarget
HI405878.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:92   AUCCAAUCUCACUCAAUCCACAUG   115

1.5 Sequence 4003 from Patent EP2074227 NA coding protein psRNATarget
LQ238008.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:92   AUCCAAUCUCACUCAAUCCACAUG   115

1.5 Sequence 4003 from Patent EP2985353 NA coding protein psRNATarget
JB166339.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:92   AUCCAAUCUCACUCAAUCCACAUG   115

1.5 Sequence 4003 from Patent EP2559767 NA coding protein psRNATarget
JB166338.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:88   AUCCAAUCUCACUCAAUCCACAUG   111

1.5 Sequence 4002 from Patent EP2559767 NA coding protein psRNATarget
HI405877.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:88   AUCCAAUCUCACUCAAUCCACAUG   111

1.5 Sequence 4002 from Patent EP2074227 NA coding protein psRNATarget
LQ238007.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:88   AUCCAAUCUCACUCAAUCCACAUG   111

1.5 Sequence 4002 from Patent EP2985353 NA coding protein psRNATarget
LQ238023.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:80   AUCCAAUCUCACUCAAUCCACAUG   103

1.5 Sequence 4018 from Patent EP2985353 NA coding protein psRNATarget
JB166354.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:80   AUCCAAUCUCACUCAAUCCACAUG   103

1.5 Sequence 4018 from Patent EP2559767 NA coding protein psRNATarget
HI405893.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:80   AUCCAAUCUCACUCAAUCCACAUG   103

1.5 Sequence 4018 from Patent EP2074227 NA coding protein psRNATarget
EZ092645.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||||||||||||*|||||
targets:17   AUCCAAUCUCACUCAAUCCACAUG   40

1.5 TSA: Zea mays contig28294, mRNA sequence NA coding protein psRNATarget
XM_008674375.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=|=||||||||||||||*|||||
targets:3439   AUCUAAUCUCACUCAAUCCACAUG   3462

1.5 PREDICTED: Zea mays uncharacterized LOC100276614 (LOC100276614), transcript variant X1, mRNA NA coding protein psRNATarget
XM_008674376.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=|=||||||||||||||*|||||
targets:3408   AUCUAAUCUCACUCAAUCCACAUG   3431

1.5 PREDICTED: Zea mays uncharacterized LOC100276614 (LOC100276614), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008674377.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=|=||||||||||||||*|||||
targets:3395   AUCUAAUCUCACUCAAUCCACAUG   3418

1.5 PREDICTED: Zea mays uncharacterized LOC100276614 (LOC100276614), transcript variant X3, mRNA NA coding protein psRNATarget
XM_020545430.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:5805   AUCCAAUCCCACUCAAUCCACAUG   5828

2.5 PREDICTED: Zea mays uncharacterized LOC109942872 (LOC109942872), mRNA NA coding protein psRNATarget
XM_008658241.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1230   AUCCAAUCCCACUCAAUCCACAUG   1253

2.5 PREDICTED: Zea mays probable peptidyl-tRNA hydrolase 2 (LOC103635865), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020549842.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1200   AUCCAAUCCCACUCAAUCCACAUG   1223

2.5 PREDICTED: Zea mays uncharacterized LOC100381972 (LOC100381972), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008675817.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  ||=|||||*|||||||||*|||||
targets:4058   ACUCAAUCCCACUCAAUCCACAUG   4081

2.5 PREDICTED: Zea mays probable chromatin-remodeling complex ATPase chain (LOC103650180), transcript variant X2, mRNA NA coding protein psRNATarget
XM_020549841.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1200   AUCCAAUCCCACUCAAUCCACAUG   1223

2.5 PREDICTED: Zea mays uncharacterized LOC100381972 (LOC100381972), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020549843.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1082   AUCCAAUCCCACUCAAUCCACAUG   1105

2.5 PREDICTED: Zea mays uncharacterized LOC100381972 (LOC100381972), transcript variant X3, mRNA NA coding protein psRNATarget
NM_001175969.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1959   AUCCAAUCCCACUCAAUCCACAUG   1982

2.5 Zea mays uncharacterized LOC100383311 (LOC100383311), mRNA NA coding protein psRNATarget
BT066874.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1959   AUCCAAUCCCACUCAAUCCACAUG   1982

2.5 Zea mays full-length cDNA clone ZM_BFb0081D21 mRNA, complete cds NA coding protein psRNATarget
XM_008679547.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:2501   AUCCAAUCCCACUCAAUCCACAUG   2524

2.5 PREDICTED: Zea mays putative methyltransferase PMT15 (LOC101027245), transcript variant X1, mRNA NA coding protein psRNATarget
XM_008661718.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:2212   AUCCAAUCCCACUCAAUCCACAUG   2235

2.5 PREDICTED: Zea mays serine/arginine repetitive matrix protein 1 (LOC103638926), mRNA NA coding protein psRNATarget
EU955633.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1816   AUCCAAUCCCACUCAAUCCACAUG   1839

2.5 Zea mays clone 1540038 transposon protein mRNA, complete cds NA coding protein psRNATarget
NM_001154031.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1816   AUCCAAUCCCACUCAAUCCACAUG   1839

2.5 Zea mays uncharacterized LOC100281112 (LOC100281112), mRNA NA coding protein psRNATarget
NM_001279968.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1531   AUCCAAUCCCACUCAAUCCACAUG   1554

2.5 Zea mays putative methyltransferase PMT15 (LOC101027245), mRNA NA coding protein psRNATarget
BT088232.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:1531   AUCCAAUCCCACUCAAUCCACAUG   1554

2.5 Zea mays full-length cDNA clone ZM_BFc0086F14 mRNA, complete cds NA coding protein psRNATarget
BT069115.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:529   AUCCAAUCCCACUCAAUCCACAUG   552

2.5 Zea mays full-length cDNA clone ZM_BFb0186N21 mRNA, complete cds NA coding protein psRNATarget
BT085319.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:177   AUCCAAUCCCACUCAAUCCACAUG   200

2.5 Zea mays full-length cDNA clone ZM_BFb0375P22 mRNA, complete cds NA coding protein psRNATarget
XM_020552889.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:875   AUCCAAUCCCACUCAAUCCACAUG   898

2.5 PREDICTED: Zea mays pre-mRNA-splicing factor CWC21-like (LOC103654764), transcript variant X5, mRNA NA coding protein psRNATarget
EU951448.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:746   AUCCAAUCCCACUCAAUCCACAUG   769

2.5 Zea mays clone 701961 mRNA sequence NA coding protein psRNATarget
EZ064016.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:121   AUCCAAUCCCACUCAAUCCACAUG   144

2.5 TSA: Zea mays contig65139, mRNA sequence NA coding protein psRNATarget
LQ235220.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:99   AUCCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1215 from Patent EP2985353 NA coding protein psRNATarget
LQ235224.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:99   AUCCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1219 from Patent EP2985353 NA coding protein psRNATarget
HI403090.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:99   AUCCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1215 from Patent EP2074227 NA coding protein psRNATarget
HI403094.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:99   AUCCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1219 from Patent EP2074227 NA coding protein psRNATarget
JB163555.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:99   AUCCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1219 from Patent EP2559767 NA coding protein psRNATarget
JB163551.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:99   AUCCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1215 from Patent EP2559767 NA coding protein psRNATarget
LQ237971.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:90   AUCCAAUCCCACUCAAUCCACAUG   113

2.5 Sequence 3966 from Patent EP2985353 NA coding protein psRNATarget
JB166302.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:90   AUCCAAUCCCACUCAAUCCACAUG   113

2.5 Sequence 3966 from Patent EP2559767 NA coding protein psRNATarget
HI405841.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:90   AUCCAAUCCCACUCAAUCCACAUG   113

2.5 Sequence 3966 from Patent EP2074227 NA coding protein psRNATarget
JB166363.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:81   AUCCAAUCCCACUCAAUCCACAUG   104

2.5 Sequence 4027 from Patent EP2559767 NA coding protein psRNATarget
LQ238032.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:81   AUCCAAUCCCACUCAAUCCACAUG   104

2.5 Sequence 4027 from Patent EP2985353 NA coding protein psRNATarget
HI405902.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:81   AUCCAAUCCCACUCAAUCCACAUG   104

2.5 Sequence 4027 from Patent EP2074227 NA coding protein psRNATarget
HI405889.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:80   AUCCAAUCCCACUCAAUCCACAUG   103

2.5 Sequence 4014 from Patent EP2074227 NA coding protein psRNATarget
JB166350.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:80   AUCCAAUCCCACUCAAUCCACAUG   103

2.5 Sequence 4014 from Patent EP2559767 NA coding protein psRNATarget
LQ238019.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |=||||||*|||||||||*|||||
targets:80   AUCCAAUCCCACUCAAUCCACAUG   103

2.5 Sequence 4014 from Patent EP2985353 NA coding protein psRNATarget
BT066987.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |==|||||*|||||||||*|||||
targets:1416   AUUCAAUCCCACUCAAUCCACAUG   1439

2.5 Zea mays full-length cDNA clone ZM_BFb0138F03 mRNA, complete cds NA coding protein psRNATarget
NM_001147844.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |==|||||*|||||||||*|||||
targets:1125   AUUCAAUCCCACUCAAUCCACAUG   1148

2.5 Zea mays Phytanoyl-CoA dioxygenase (LOC100273407), mRNA NA coding protein psRNATarget
BT041052.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |==|||||*|||||||||*|||||
targets:1125   AUUCAAUCCCACUCAAUCCACAUG   1148

2.5 Zea mays full-length cDNA clone ZM_BFc0169K03 mRNA, complete cds NA coding protein psRNATarget
EU942673.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |==|||||*|||||||||*|||||
targets:92   AUUCAAUCCCACUCAAUCCACAUG   115

2.5 Zea mays clone 1529344 mRNA sequence NA coding protein psRNATarget
LQ235150.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |==|||||*|||||||||*|||||
targets:99   AUUCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1145 from Patent EP2985353 NA coding protein psRNATarget
HI403020.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |==|||||*|||||||||*|||||
targets:99   AUUCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1145 from Patent EP2074227 NA coding protein psRNATarget
JB163481.1
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  |==|||||*|||||||||*|||||
targets:99   AUUCAAUCCCACUCAAUCCACAUG   122

2.5 Sequence 1145 from Patent EP2559767 NA coding protein psRNATarget
XM_008660479.2
ncRNA:24   UGGGUUAGAGUGAGUUAGAUGUAC   1
  ||=*|||*|||||||||||||||*
targets:1647   ACUAAAUAUCACUCAAUCUACAUA   1670

2.0 PREDICTED: Zea mays uncharacterized LOC103637724 (LOC103637724), mRNA NA coding protein psRNATarget
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