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BaseInfo

ncRNA ID ath-miR169d
Species Arabidopsis thaliana
Class miRNA
Genome position chr1:20039463-20039616 [-]
Reference genome TAIR10
Source miRBase
Length 21
Mature sequence(if miRNA) 94 - UGAGCCAAGGAUGACUUGCCG - 114
Stem-loop(if miRNA)      A      C   -   G     AUU      U     U         A          AUGU      CA    UU
GUAUC UAGAGU UUG CAU GAAAA   AAAGAA GAGAU GAGCCAAGG UGACUUGCCG    UAUCAA  AAUC  A
||||| |||||| ||| ||| |||||   |||||| ||||| ||||||||| ||||||||||    ||||||  ||||
UAUAG AUCUCA AAC GUA CUUUU   UUUCUU CUUUG CUCGGUUCC GUUGAACGGC    GUGGUU  UUAG  A
     -      -   U   A     -CU      C     U         A          --CU      --    UC
Stem-loop sequence GUAUCAUAGAGUCUUGCAUGGAAAAAUUAAAGAAUGAGAUUGAGCCAAGGAUGACUUGCCGAUGUUAUCAACAAAUCUUAACUGAUUUUGGUGUCCGGCAAGUUGACCUUGGCUCUGUUUCCUUCUUUUCUUUUCAAUGUCAAACUCUAGAUAU

Targets Info

Target Acc Alignment Exception Target Description Target Gene Name Target Type Method
NM_001342883.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:736   AGGCAAAUCAUCUUUGGCUCA   756

2.5 Arabidopsis thaliana nuclear factor Y, subunit A10 (NF-YA10), mRNA nuclear factor Y, subunit A10(NF-YA10) coding protein psRNATarget
AY084643.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1035   AGGCAAAUCAUCUUUGGCUCA   1055

2.5 Arabidopsis thaliana clone 114015 mRNA, complete sequence NA coding protein psRNATarget
BX832331.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1067   AGGCAAAUCAUCUUUGGCUCA   1087

2.5 Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTPGH66ZB09 of Hormone Treated Callus of strain col-0 of Arabidopsis thaliana (thale cress) NA coding protein psRNATarget
BX824345.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1134   AGGCAAAUCAUCUUUGGCUCA   1154

2.5 Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTPGH41ZA11 of Hormone Treated Callus of strain col-0 of Arabidopsis thaliana (thale cress) NA coding protein psRNATarget
Y13721.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1095   AGGCAAAUCAUCUUUGGCUCA   1115

2.5 Arabidopsis thaliana mRNA for Hap2b transcription factor NA coding protein psRNATarget
BX829562.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1230   AGGCAAAUCAUCUUUGGCUCA   1250

2.5 Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTFB21ZC09 of Flowers and buds of strain col-0 of Arabidopsis thaliana (thale cress) NA coding protein psRNATarget
BX822535.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1184   AGGCAAAUCAUCUUUGGCUCA   1204

2.5 Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTFB46ZH10 of Flowers and buds of strain col-0 of Arabidopsis thaliana (thale cress) NA coding protein psRNATarget
AK228089.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1175   AGGCAAAUCAUCUUUGGCUCA   1195

2.5 Arabidopsis thaliana mRNA for putative transcription factor, complete cds, clone: RAFL14-57-G15 NA coding protein psRNATarget
NM_120734.4
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1236   AGGCAAAUCAUCUUUGGCUCA   1256

2.5 Arabidopsis thaliana nuclear factor Y, subunit A10 (NF-YA10), mRNA nuclear factor Y, subunit A10(NF-YA10) coding protein psRNATarget
NM_203013.3
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1322   AGGCAAAUCAUCUUUGGCUCA   1342

2.5 Arabidopsis thaliana nuclear factor Y, subunit A10 (NF-YA10), mRNA nuclear factor Y, subunit A10(NF-YA10) coding protein psRNATarget
NM_001342882.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1258   AGGCAAAUCAUCUUUGGCUCA   1278

2.5 Arabidopsis thaliana nuclear factor Y, subunit A10 (NF-YA10), mRNA nuclear factor Y, subunit A10(NF-YA10) coding protein psRNATarget
NM_001342881.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1270   AGGCAAAUCAUCUUUGGCUCA   1290

2.5 Arabidopsis thaliana nuclear factor Y, subunit A10 (NF-YA10), mRNA nuclear factor Y, subunit A10(NF-YA10) coding protein psRNATarget
NM_203012.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1306   AGGCAAAUCAUCUUUGGCUCA   1326

2.5 Arabidopsis thaliana nuclear factor Y, subunit A10 (NF-YA10), mRNA nuclear factor Y, subunit A10(NF-YA10) coding protein psRNATarget
NM_111443.4
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1313   AGGCAAAUCAUCUUUGGCUCA   1333

2.5 Arabidopsis thaliana nuclear factor Y, subunit A2 (NF-YA2), mRNA nuclear factor Y, subunit A2(NF-YA2) coding protein psRNATarget
NM_001342880.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1503   AGGCAAAUCAUCUUUGGCUCA   1523

2.5 Arabidopsis thaliana nuclear factor Y, subunit A10 (NF-YA10), mRNA nuclear factor Y, subunit A10(NF-YA10) coding protein psRNATarget
NM_001337602.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *|||||*|||||=||||||||
targets:1512   AGGCAAAUCAUCUUUGGCUCA   1532

2.5 Arabidopsis thaliana nuclear factor Y, subunit A2 (NF-YA2), mRNA nuclear factor Y, subunit A2(NF-YA2) coding protein psRNATarget
NM_001338098.1
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *||*|||||||||||||||*|
targets:1272   AGGGAAGUCAUCCUUGGCUAA   1292

2.5 Arabidopsis thaliana nuclear factor Y, subunit A6 (NF-YA6), mRNA nuclear factor Y, subunit A6(NF-YA6) coding protein psRNATarget
NM_112256.3
ncRNA:21   GCCGUUCAGUAGGAACCGAGU   1
  *||*|||||||||||||||*|
targets:1625   AGGGAAGUCAUCCUUGGCUAA   1645

2.5 Arabidopsis thaliana nuclear factor Y, subunit A6 (NF-YA6), mRNA nuclear factor Y, subunit A6(NF-YA6) coding protein psRNATarget

Reference

1 PMID:15200956
"Computational identification of plant microRNAs and their targets, including a stress-induced miRNA";
Jones-Rhoades MW, Bartel DP;
Mol Cell. 14:787-799(2004).
2 PMID:16040653
"Expression of Arabidopsis MIRNA genes";
Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC;
Plant Physiol. 138:2145-2154(2005).
3 PMID:16954541
"MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant";
Lu C, Kulkarni K, Souret FF, MuthuValliappan R, Tej SS, Poethig RS, Henderson IR, Jacobsen SE, Wang W, Green PJ, Meyers BC;
Genome Res. 16:1276-1288(2006).
4 PMID:17182867
"A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana";
Rajagopalan R, Vaucheret H, Trejo J, Bartel DP;
Genes Dev. 20:3407-3425(2006).
5 PMID:19815687
"Hypoxia-responsive microRNAs and trans-acting small interfering RNAs in Arabidopsis";
Moldovan D, Spriggs A, Yang J, Pogson BJ, Dennis ES, Wilson IW;
J Exp Bot. 61:165-177(2010).
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