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BaseInfo

ncRNA ID novel_zma_miR4642
Species Zea mays
Class miRNA
Genome position Chr6:145008474-145008636 [-]
Reference genome RefGen_v4
Source SRR2287162
Length 21
Mature sequence(if miRNA) 1 - UGUUUGCAGAGUGAAGUUUAA - 21
Stem-loop(if miRNA) --     -GU   AA           A     -  GA - -    AA    AGAUGACA  G    AUA     UA AGAGUGAA
  AGACU   CUC  GCAAGUAGUGU AAAUA UG  A C ACGG  CUGU        UU UUUG   CUGUU  C        G
  |||||   |||  ||||||||||| ||||| ||  | | ||||  ||||        || ||||   |||||  |
  UUUGA   GAG  CGUUUGUCAUA UUUGU AC  U G UGUC  GGCG        AG AGAU   GGUAG  G        U
AA     AGU   -A           G     U  AG A A    AA    --GAAAGG  G    GGG     GG AUAAAAUU
Stem-loop sequence AGACUGUCUCAAGCAAGUAGUGUAAAAUAUGGAACACGGAACUGUAGAUGACAUUGUUUGAUACUGUUUACAGAGUGAAGUUUAAAAUAGGGGAUGGGGGUAGAGGAGGAAAGGCGGAACUGUAGAUGACAUUGUUUGAUACUGUUUGCAGAGUGAAGUUUAA

Targets Info

Target Acc Alignment Exception Target Description Target Gene Name Target Type Method
BT067977.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||||||||||||=|||||
targets:1148   UUAAACUUCACUCUGUAAACA   1168

1.5 Zea mays full-length cDNA clone ZM_BFb0013K06 mRNA, complete cds NA coding protein psRNATarget
XM_008667085.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=||||||=||||||||
targets:4093   UUAAAUUUCACUUUGCAAACA   4113

2.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X1, mRNA NA coding protein psRNATarget
XM_008667085.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:4324   UUAAACUUCACUCUACAAACA   4344

1.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X1, mRNA NA coding protein psRNATarget
XM_008667086.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=||||||=||||||||
targets:4075   UUAAAUUUCACUUUGCAAACA   4095

2.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008667086.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:4306   UUAAACUUCACUCUACAAACA   4326

1.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X2, mRNA NA coding protein psRNATarget
XM_008667089.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=||||||=||||||||
targets:3998   UUAAAUUUCACUUUGCAAACA   4018

2.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X5, mRNA NA coding protein psRNATarget
XM_008667089.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:4229   UUAAACUUCACUCUACAAACA   4249

1.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X5, mRNA NA coding protein psRNATarget
XM_020546903.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=||||||=||||||||
targets:3990   UUAAAUUUCACUUUGCAAACA   4010

2.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X6, mRNA NA coding protein psRNATarget
XM_020546903.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:4221   UUAAACUUCACUCUACAAACA   4241

1.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X6, mRNA NA coding protein psRNATarget
XM_008667087.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=||||||=||||||||
targets:3974   UUAAAUUUCACUUUGCAAACA   3994

2.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X3, mRNA NA coding protein psRNATarget
XM_008667087.2
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:4205   UUAAACUUCACUCUACAAACA   4225

1.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X3, mRNA NA coding protein psRNATarget
XM_020546902.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=||||||=||||||||
targets:3950   UUAAAUUUCACUUUGCAAACA   3970

2.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X4, mRNA NA coding protein psRNATarget
XM_020546902.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:4181   UUAAACUUCACUCUACAAACA   4201

1.5 PREDICTED: Zea mays phytochrome A-like (LOC103643916), transcript variant X4, mRNA NA coding protein psRNATarget
BT086351.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=|||||||||||||=|
targets:1065   UUAAAUUUCACUCUGCAAAUA   1085

2.5 Zea mays full-length cDNA clone ZM_BFc0155F21 mRNA, complete cds NA coding protein psRNATarget
AY106693.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||=||||||=||||||||
targets:657   UUAAAUUUCACUUUGCAAACA   677

2.5 Zea mays PCO126085 mRNA sequence NA coding protein psRNATarget
XM_020550050.1
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-|||||||||||||||||||
targets:1053   UUCAAACUUCACUCUGCAAACA   1074

2.0 PREDICTED: Zea mays uncharacterized LOC541932 (umc1540), transcript variant X1, mRNA NA coding protein psRNATarget
EZ082317.1
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-|||||||||||||||||||
targets:24   UUCAAACUUCACUCUGCAAACA   45

2.0 TSA: Zea mays contig17959, mRNA sequence NA coding protein psRNATarget
NM_001149242.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:1234   UUAAACUUCACUCUACAAACA   1254

1.5 Zea mays hypothetical protein (LOC100275042), mRNA NA coding protein psRNATarget
BT067480.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  ||||||||||||||*||||||
targets:1234   UUAAACUUCACUCUACAAACA   1254

1.5 Zea mays full-length cDNA clone ZM_BFc0063K12 mRNA, complete cds NA coding protein psRNATarget
XM_020551216.1
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-||||||||||||||||||=
targets:704   UUCAAACUUCACUCUGCAAACG   725

3.0 PREDICTED: Zea mays uncharacterized LOC109945364 (LOC109945364), transcript variant X2, mRNA NA coding protein psRNATarget
XM_020551215.1
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-||||||||||||||||||=
targets:704   UUCAAACUUCACUCUGCAAACG   725

3.0 PREDICTED: Zea mays uncharacterized LOC109945364 (LOC109945364), transcript variant X1, mRNA NA coding protein psRNATarget
XM_020551217.1
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-||||||||||||||||||=
targets:704   UUCAAACUUCACUCUGCAAACG   725

3.0 PREDICTED: Zea mays uncharacterized LOC109945364 (LOC109945364), transcript variant X3, mRNA NA coding protein psRNATarget
BT068418.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||||*|||||||||||=|
targets:977   UUAAACUCCACUCUGCAAAUA   997

2.5 Zea mays full-length cDNA clone ZM_BFb0173D04 mRNA, complete cds NA coding protein psRNATarget
BT038606.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |||||||*|||||||||||=|
targets:810   UUAAACUCCACUCUGCAAAUA   830

2.5 Zea mays full-length cDNA clone ZM_BFb0296H03 mRNA, complete cds NA coding protein psRNATarget
XM_008669692.2
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-||||*||||||||||||||
targets:2342   UUCAAACAUCACUCUGCAAACA   2363

3.0 PREDICTED: Zea mays TPR domain containing protein (LOC100281311), transcript variant X3, mRNA NA coding protein psRNATarget
XM_020547703.1
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-||||*||||||||||||||
targets:1302   UUCAAACAUCACUCUGCAAACA   1323

3.0 PREDICTED: Zea mays TPR domain containing protein (LOC100281311), transcript variant X4, mRNA NA coding protein psRNATarget
EU965596.1
ncRNA:21   AA-UUUGAAGUGAGACGUUUGU   1
  ||-|||||*|||||||||||||
targets:1182   UUCAAACUCCACUCUGCAAACA   1203

3.0 Zea mays clone 287279 2-dehydro-3-deoxyphosphooctonate aldolase mRNA, complete cds NA coding protein psRNATarget
NM_001148370.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*||||||||||||*||||||
targets:1270   UCAAACUUCACUCUACAAACA   1290

1.5 Zea mays O-sialoglycoprotein endopeptidase (LOC100273984), mRNA NA coding protein psRNATarget
BT042149.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*||||||||||||*||||||
targets:1270   UCAAACUUCACUCUACAAACA   1290

1.5 Zea mays full-length cDNA clone ZM_BFb0146I19 mRNA, complete cds NA coding protein psRNATarget
EU966417.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*||||||||||||*||||||
targets:450   UCAAACUUCACUCUACAAACA   470

1.5 Zea mays clone 294325 hypothetical protein mRNA, complete cds NA coding protein psRNATarget
LQ238616.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*||||||||||||*||||||
targets:128   UCAAACUUCACUCUACAAACA   148

1.5 Sequence 4611 from Patent EP2985353 NA coding protein psRNATarget
HI406486.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*||||||||||||*||||||
targets:128   UCAAACUUCACUCUACAAACA   148

1.5 Sequence 4611 from Patent EP2074227 NA coding protein psRNATarget
JB166947.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*||||||||||||*||||||
targets:128   UCAAACUUCACUCUACAAACA   148

1.5 Sequence 4611 from Patent EP2559767 NA coding protein psRNATarget
EU956670.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*|||||*|||||||=|||||
targets:455   UAAAACUACACUCUGUAAACA   475

2.5 Zea mays clone 1570252 WRKY22 - superfamily of TFs having WRKY and zinc finger domains mRNA, complete cds NA coding protein psRNATarget
NM_001154344.1
ncRNA:21   AAUUUGAAGUGAGACGUUUGU   1
  |*|||||*|||||||=|||||
targets:455   UAAAACUACACUCUGUAAACA   475

2.5 Zea mays WRKY22 - superfamily of TFs having WRKY and zinc finger domains (LOC100281426), mRNA NA coding protein psRNATarget
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