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BaseInfo

ncRNA ID novel_zma_miR3250
Species Zea mays
Class miRNA
Genome position Chr5:199889114-199889177 [+]
Reference genome RefGen_v4
Source SRR2089715
Length 23
Mature sequence(if miRNA) 42 - AGCGACAACUAAAAAAACGGAGG - 64
Stem-loop(if miRNA) --       GU              G      G
  UCUGUUU  UUUUAGUUGUCGCU GAUAGU C
  |||||||  |||||||||||||| ||||||
  AGGCAAA  AAAAUCAACAGCGA CUAUCA A
GG       --              A      A
Stem-loop sequence UCUGUUUGUUUUUAGUUGUCGCUGGAUAGUGCAAACUAUCAAGCGACAACUAAAAAAACGGAGG

Targets Info

Target Acc Alignment Exception Target Description Target Gene Name Target Type Method
LQ241364.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:8   CCUCCGUUUCGUUUUAGUUGUCGCU   32

2.5 Sequence 7359 from Patent EP2985353 NA coding protein psRNATarget
HI409234.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:8   CCUCCGUUUCGUUUUAGUUGUCGCU   32

2.5 Sequence 7359 from Patent EP2074227 NA coding protein psRNATarget
JB169695.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:8   CCUCCGUUUCGUUUUAGUUGUCGCU   32

2.5 Sequence 7359 from Patent EP2559767 NA coding protein psRNATarget
HI407269.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5394 from Patent EP2074227 NA coding protein psRNATarget
JB167730.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5394 from Patent EP2559767 NA coding protein psRNATarget
LQ239399.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5394 from Patent EP2985353 NA coding protein psRNATarget
JB167785.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5449 from Patent EP2559767 NA coding protein psRNATarget
HI407324.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5449 from Patent EP2074227 NA coding protein psRNATarget
LQ239454.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5449 from Patent EP2985353 NA coding protein psRNATarget
HI407211.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5336 from Patent EP2074227 NA coding protein psRNATarget
LQ239341.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5336 from Patent EP2985353 NA coding protein psRNATarget
JB167672.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5336 from Patent EP2559767 NA coding protein psRNATarget
JB167691.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5355 from Patent EP2559767 NA coding protein psRNATarget
JB167766.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5430 from Patent EP2559767 NA coding protein psRNATarget
LQ239435.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5430 from Patent EP2985353 NA coding protein psRNATarget
HI407305.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5430 from Patent EP2074227 NA coding protein psRNATarget
HI407230.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5355 from Patent EP2074227 NA coding protein psRNATarget
LQ239360.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:11   CCUCCGUUUCGUUUUAGUUGUCGCU   35

2.5 Sequence 5355 from Patent EP2985353 NA coding protein psRNATarget
LQ235529.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:16   CCUCCGUUUCUUUUUAGUUGUCGCU   40

2.5 Sequence 1524 from Patent EP2985353 NA coding protein psRNATarget
LQ235417.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:16   CCUCCGUUUCUUUUUAGUUGUCGCU   40

2.5 Sequence 1412 from Patent EP2985353 NA coding protein psRNATarget
HI403399.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:16   CCUCCGUUUCUUUUUAGUUGUCGCU   40

2.5 Sequence 1524 from Patent EP2074227 NA coding protein psRNATarget
JB163748.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:16   CCUCCGUUUCUUUUUAGUUGUCGCU   40

2.5 Sequence 1412 from Patent EP2559767 NA coding protein psRNATarget
HI403287.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:16   CCUCCGUUUCUUUUUAGUUGUCGCU   40

2.5 Sequence 1412 from Patent EP2074227 NA coding protein psRNATarget
JB163860.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:16   CCUCCGUUUCUUUUUAGUUGUCGCU   40

2.5 Sequence 1524 from Patent EP2559767 NA coding protein psRNATarget
EZ112557.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:53   CCUCCGUUUCUUUUUAGUUGUCGCU   77

2.5 TSA: Zea mays contig48218, mRNA sequence NA coding protein psRNATarget
BT062468.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:576   CCUCCGUUUCGUUUUAGUUGUCGCU   600

2.5 Zea mays full-length cDNA clone ZM_BFb0302A02 mRNA, complete cds NA coding protein psRNATarget
EU952378.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:718   CCUCCGUUUAUUUUUAGUUGUCGCU   742

2.5 Zea mays clone 1278936 mitochondrial import inner membrane translocase subunit TIM14 mRNA, complete cds; nuclear gene for mitochondrial product NA coding protein psRNATarget
BT055583.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:840   CCUCCGUUUCGUUUUAGUUGUCGCU   864

2.5 Zea mays full-length cDNA clone ZM_BFc0049P16 mRNA, complete cds NA coding protein psRNATarget
NM_001153043.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:840   CCUCCGUUUCGUUUUAGUUGUCGCU   864

2.5 Zea mays uncharacterized LOC100280105 (LOC100280105), mRNA NA coding protein psRNATarget
BT062074.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1142   CCUCCGUUUCUUUUUAGUUGUCGCU   1166

2.5 Zea mays full-length cDNA clone ZM_BFb0212O02 mRNA, complete cds NA coding protein psRNATarget
EU968044.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1029   CCUCCGUUUCGUUUUAGUUGUCGCU   1053

2.5 Zea mays clone 313382 adenylyl-sulfate kinase 1 mRNA, complete cds NA coding protein psRNATarget
BT035546.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:917   CCUCCGUUUCGUUUUAGUUGUCGCU   941

2.5 Zea mays full-length cDNA clone ZM_BFb0068P01 mRNA, complete cds NA coding protein psRNATarget
EU945792.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1183   CCUCCGUUUCGUUUUAGUUGUCGCU   1207

2.5 Zea mays clone 285684 mRNA sequence NA coding protein psRNATarget
EU953599.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1230   CCUCCGUUUCUUUUUAGUUGUCGCU   1254

2.5 Zea mays clone 1437867 F-box domain containing protein mRNA, complete cds NA coding protein psRNATarget
XM_008682276.2
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1225   CCUCCGUUUCUUUUUAGUUGUCGCU   1249

2.5 PREDICTED: Zea mays F-box domain containing protein (LOC100285757), transcript variant X2, mRNA NA coding protein psRNATarget
EU973774.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1240   CCUCCGUUUCUUUUUAGUUGUCGCU   1264

2.5 Zea mays clone 410704 F-box domain containing protein mRNA, complete cds NA coding protein psRNATarget
XM_008682289.2
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1254   CCUCCGUUUCUUUUUAGUUGUCGCU   1278

2.5 PREDICTED: Zea mays F-box domain containing protein (LOC100285757), transcript variant X6, mRNA NA coding protein psRNATarget
EU971616.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1167   CCUCCGUUUCGUUUUAGUUGUCGCU   1191

2.5 Zea mays clone 368130 rieske domain containing protein mRNA, complete cds NA coding protein psRNATarget
EU964554.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1332   CCUCCGUUUCGUUUUAGUUGUCGCU   1356

2.5 Zea mays clone 279840 hypothetical protein mRNA, complete cds NA coding protein psRNATarget
NM_001158647.2
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1306   CCUCCGUUUCUUUUUAGUUGUCGCU   1330

2.5 Zea mays F-box domain containing protein (LOC100285757), mRNA NA coding protein psRNATarget
EU973763.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1308   CCUCCGUUUCUUUUUAGUUGUCGCU   1332

2.5 Zea mays clone 409560 F-box domain containing protein mRNA, complete cds NA coding protein psRNATarget
XM_008682282.2
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1414   CCUCCGUUUCUUUUUAGUUGUCGCU   1438

2.5 PREDICTED: Zea mays F-box domain containing protein (LOC100285757), transcript variant X3, mRNA NA coding protein psRNATarget
XM_020549872.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1270   CCUCCGUUUCGUUUUAGUUGUCGCU   1294

2.5 PREDICTED: Zea mays uncharacterized LOC100382893 (LOC100382893), transcript variant X1, mRNA NA coding protein psRNATarget
NM_001175582.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1437   CCUCCGUUUCGUUUUAGUUGUCGCU   1461

2.5 Zea mays uncharacterized LOC100382893 (LOC100382893), mRNA NA coding protein psRNATarget
BT065656.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1437   CCUCCGUUUCGUUUUAGUUGUCGCU   1461

2.5 Zea mays full-length cDNA clone ZM_BFc0005B18 mRNA, complete cds NA coding protein psRNATarget
NM_001156357.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1520   CCUCCGUUUCGUUUUAGUUGUCGCU   1544

2.5 Zea mays Acetylornithine deacetylase (pco121857a), mRNA NA coding protein psRNATarget
EU964807.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1520   CCUCCGUUUCGUUUUAGUUGUCGCU   1544

2.5 Zea mays clone 281665 acetylornithine deacetylase mRNA, complete cds NA coding protein psRNATarget
XM_008674191.2
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1156   CCUCCGUUUCUUUUUAGUUGUCGCU   1180

2.5 PREDICTED: Zea mays putative protein S-acyltransferase 16 (LOC100273154), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020553332.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:2003   CCUCCGUUUCUUUUUAGUUGUCGCU   2027

2.5 PREDICTED: Zea mays F-box domain containing protein (LOC100285757), transcript variant X4, mRNA NA coding protein psRNATarget
XM_020553342.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:2034   CCUCCGUUUCUUUUUAGUUGUCGCU   2058

2.5 PREDICTED: Zea mays F-box domain containing protein (LOC100285757), transcript variant X7, mRNA NA coding protein psRNATarget
XM_008677351.2
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:2062   CCUCCGUUUCUUUUUAGUUGUCGCU   2086

2.5 PREDICTED: Zea mays hypothetical protein (LOC103651662), mRNA NA coding protein psRNATarget
XM_020553327.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:2116   CCUCCGUUUCUUUUUAGUUGUCGCU   2140

2.5 PREDICTED: Zea mays F-box domain containing protein (LOC100285757), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020553339.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:2147   CCUCCGUUUCUUUUUAGUUGUCGCU   2171

2.5 PREDICTED: Zea mays F-box domain containing protein (LOC100285757), transcript variant X5, mRNA NA coding protein psRNATarget
XM_020537567.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||||||||--||||||||||||||
targets:1457   CCUCCGUUUCUUUUUAGUUGUCGCU   1481

2.5 PREDICTED: Zea mays MADS2 (zmm2), transcript variant X2, mRNA NA coding protein psRNATarget
HI410051.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||=|||||--||||||||||||||
targets:6   CCUUCGUUUCGUUUUAGUUGUCGCU   30

2.5 Sequence 8176 from Patent EP2074227 NA coding protein psRNATarget
JB170512.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||=|||||--||||||||||||||
targets:6   CCUUCGUUUCGUUUUAGUUGUCGCU   30

2.5 Sequence 8176 from Patent EP2559767 NA coding protein psRNATarget
LQ242181.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |||=|||||--||||||||||||||
targets:6   CCUUCGUUUCGUUUUAGUUGUCGCU   30

2.5 Sequence 8176 from Patent EP2985353 NA coding protein psRNATarget
EZ065373.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |=|||||||--||||||||||||||
targets:283   CUUCCGUUUCGUUUUAGUUGUCGCU   307

2.5 TSA: Zea mays contig01006, mRNA sequence NA coding protein psRNATarget
NM_001158152.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  =||||||||--||||||||||||||
targets:2118   UCUCCGUUUCGUUUUAGUUGUCGCU   2142

2.5 Zea mays cyclin-like F-box (LOC100285258), mRNA NA coding protein psRNATarget
EU971439.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  =||||||||--||||||||||||||
targets:2118   UCUCCGUUUCGUUUUAGUUGUCGCU   2142

2.5 Zea mays clone 364738 cyclin-like F-box mRNA, complete cds NA coding protein psRNATarget
XM_008667486.2
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  |=|||||||--||||||||||||||
targets:1338   CUUCCGUUUCGUUUUAGUUGUCGCU   1362

2.5 PREDICTED: Zea mays mannan endo-1,4-beta-mannosidase 3 (LOC103644285), transcript variant X1, mRNA NA coding protein psRNATarget
LQ241681.1
ncRNA:22   GAGGCAAA---AAAAUCAACAGCGA   1
  ||||||||---||||||||||||||
targets:1   CUCCGUUUCGGUUUUAGUUGUCGCU   25

3.0 Sequence 7676 from Patent EP2985353 NA coding protein psRNATarget
HI409551.1
ncRNA:22   GAGGCAAA---AAAAUCAACAGCGA   1
  ||||||||---||||||||||||||
targets:1   CUCCGUUUCGGUUUUAGUUGUCGCU   25

3.0 Sequence 7676 from Patent EP2074227 NA coding protein psRNATarget
JB170012.1
ncRNA:22   GAGGCAAA---AAAAUCAACAGCGA   1
  ||||||||---||||||||||||||
targets:1   CUCCGUUUCGGUUUUAGUUGUCGCU   25

3.0 Sequence 7676 from Patent EP2559767 NA coding protein psRNATarget
LQ238250.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  ||*||||||--||||||||||||||
targets:1   CCCCCGUUUCGUUUUAGUUGUCGCU   25

2.5 Sequence 4245 from Patent EP2985353 NA coding protein psRNATarget
HI406120.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  ||*||||||--||||||||||||||
targets:1   CCCCCGUUUCGUUUUAGUUGUCGCU   25

2.5 Sequence 4245 from Patent EP2074227 NA coding protein psRNATarget
JB166581.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  ||*||||||--||||||||||||||
targets:1   CCCCCGUUUCGUUUUAGUUGUCGCU   25

2.5 Sequence 4245 from Patent EP2559767 NA coding protein psRNATarget
HI407229.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  ||*||||||--||||||||||||||
targets:10   CCCCCGUUUCUUUUUAGUUGUCGCU   34

2.5 Sequence 5354 from Patent EP2074227 NA coding protein psRNATarget
JB167690.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  ||*||||||--||||||||||||||
targets:10   CCCCCGUUUCUUUUUAGUUGUCGCU   34

2.5 Sequence 5354 from Patent EP2559767 NA coding protein psRNATarget
LQ239359.1
ncRNA:23   GGAGGCAAA--AAAAUCAACAGCGA   1
  ||*||||||--||||||||||||||
targets:10   CCCCCGUUUCUUUUUAGUUGUCGCU   34

2.5 Sequence 5354 from Patent EP2985353 NA coding protein psRNATarget
LQ238914.1
ncRNA:23   GGAGGCAAAAAAAUCAACAGCGA   1
  |||||*|||||*|||||||||||
targets:1   CCUCCUUUUUUCUAGUUGUCGCU   23

2.5 Sequence 4909 from Patent EP2985353 NA coding protein psRNATarget
HI406784.1
ncRNA:23   GGAGGCAAAAAAAUCAACAGCGA   1
  |||||*|||||*|||||||||||
targets:1   CCUCCUUUUUUCUAGUUGUCGCU   23

2.5 Sequence 4909 from Patent EP2074227 NA coding protein psRNATarget
JB167245.1
ncRNA:23   GGAGGCAAAAAAAUCAACAGCGA   1
  |||||*|||||*|||||||||||
targets:1   CCUCCUUUUUUCUAGUUGUCGCU   23

2.5 Sequence 4909 from Patent EP2559767 NA coding protein psRNATarget
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