Identification of putative microRNA target sites in the genome of Arabidopsis thaliana.
A. thaliana microRNA screening sequences were used at
http://plantgrn.noble.org/psRNATarget/
for screening of A. thaliana chromosomes (TAIR8 genome release).
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MIR156A-F |
TGACAGAAGAGAGTGAGCAC |
241 |
MIR156G |
CGACAGAAGAGAGTGAGCAC |
230 |
MIR156H |
TGACAGAAGAAAGAGAGCAC |
253 |
MIR157A-C |
TTGACAGAAGATAGAGAGCAC |
245 |
MIR157D |
TGACAGAAGATAGAGAGCAC |
236 |
MIR158A |
TCCCAAATGTAGACAAAGCA |
195 |
MIR158B |
CCCCAAATGTAGACAAAGCA |
176 |
MIR159A |
TTTGGATTGAAGGGAGCTCTA |
261 |
MIR159B |
TTTGGATTGAAGGGAGCTCTT |
239 |
MIR159C |
TTTGGATTGAAGGGAGCTCCT |
258 |
MIR160A-C |
TGCCTGGCTCCCTGTATGCCA |
121 |
MIR161.1 |
TGAAAGTGACTACATCGGGGT |
223 |
MIR161.2 |
TCAATGCATTGAAAGTGACTA |
222 |
MIR162A/B |
TCGATAAACCTCTGCATCCAG |
163 |
MIR163 |
TTGAAGAGGACTTGGAACTTCGAT |
212 |
MIR164A/B |
TGGAGAAGCAGGGCACGTGCA |
245 |
MIR164C |
TGGAGAAGCAGGGCACGTGCG |
248 |
MIR165A/B |
TCGGACCAGGCTTCATCCCCC |
151 |
MIR166A-G |
TCGGACCAGGCTTCATTCCCC |
183 |
MIR167A/B |
TGAAGCTGCCAGCATGATCTA |
209 |
MIR167C |
TAAGCTGCCAGCATGATCTTG |
216 |
MIR167D |
TGAAGCTGCCAGCATGATCTGG |
208 |
MIR168A/B |
TCGCTTGGTGCAGGTCGGGAA |
154 |
MIR169A |
CAGCCAAGGATGACTTGCCGA |
188 |
MIR169B/C |
CAGCCAAGGATGACTTGCCGG |
178 |
MIR169D-G |
TGAGCCAAGGATGACTTGCCG |
208 |
MIR169G* |
TCCGGCAAGTTGACCTTGGCT |
169 |
MIR169H-N |
TAGCCAAGGATGACTTGCCTG |
194 |
MIR170 |
TGATTGAGCCGTGTCAATATC |
217 |
MIR171A |
TGATTGAGCCGCGCCAATATC |
169 |
MIR171B/C |
TTGAGCCGTGCCAATATCACG |
197 |
MIR172A/B |
AGAATCTTGATGATGCTGCAT |
225 |
MIR172B* |
GCAGCACCATTAAGATTCAC |
189 |
MIR172C/D |
AGAATCTTGATGATGCTGCAG |
231 |
MIR172E |
GGAATCTTGATGATGCTGCAT |
227 |
MIR173 |
TTCGCTTGCAGAGAGAAATCAC |
210 |
MIR1886.1 |
TGAGAGAAGTGAGATGAAATC |
283 |
MIR1886.2 |
TGAGATGAAATCTTTGATTGG |
238 |
MIR1886.3 |
AATTAAAGATTTCATCTTACT |
243 |
MIR1887 |
TACTAAGTAGAGTCTAAGAGA |
216 |
MIR1888 |
TAAGTTAAGATTTGTGAAGAA |
246 |
MIR2111A* |
GTCCTCGGGATGCGGATTACC |
161 |
MIR2111A/B |
TAATCTGCATCCTGAGGTTTA |
265 |
MIR2111B* |
ATCCTCGGGATACAGTTTACC |
216 |
MIR2112-3P |
CTTTATATCCGCATTTGCGCA |
226 |
MIR2112-5P |
CGCAAATGCGGATATCAATGT |
208 |
MIR2933A/B |
GAAATCGGAGAGGAAATTCGCC |
279 |
MIR2934 |
TCTTTCTGCAAACGCCTTGGA |
209 |
MIR2935 |
TGGAATCACACGGTCGTCATTC |
207 |
MIR2936 |
CTTGAGAGAGAGAACACAGACG |
232 |
MIR2937 |
ATAAGAGCTGTTGAAGGAGTC |
235 |
MIR2938 |
GATCTTTTGAGAGGGTTCCAG |
233 |
MIR2939 |
TAACGCACAACACTAAGCCAT |
200 |
MIR319A/B |
TTGGACTGAAGGGAGCTCCCT |
209 |
MIR319C |
TTGGACTGAAGGGAGCTCCTT |
216 |
MIR3434 |
ACTTGGCTGATTCTATTATT |
230 |
MIR3434* |
TCAGAGTATCAGCCATGTGA |
217 |
MIR3440B-3P |
TGGATTGGTCAAGGGAAGCGT |
241 |
MIR3440B-5P |
TTTTCTTGGCCCATCCACTTC |
229 |
MIR390A/B |
AAGCTCAGGAGGGATAGCGCC |
220 |
MIR391 |
TTCGCAGGAGAGATAGCGCCA |
197 |
MIR3932A/B |
AACTTTGTGATGACAACGAAG |
232 |
MIR3933 |
AGAAGCAAAATGACGACTCGG |
238 |
MIR393A/B |
TCCAAAGGGATCGCATTGATCC |
173 |
MIR394A/B |
TTGGCATTCTGTCCACCTCC |
193 |
MIR395A/D/E |
CTGAAGTGTTTGGGGGAACTC |
248 |
MIR395B/C/F |
CTGAAGTGTTTGGGGGGACTC |
247 |
MIR396A |
TTCCACAGCTTTCTTGAACTG |
234 |
MIR396B |
TTCCACAGCTTTCTTGAACTT |
236 |
MIR397A |
TCATTGAGTGCAGCGTTGATG |
220 |
MIR397B |
TCATTGAGTGCATCGTTGATG |
234 |
MIR398A |
TGTGTTCTCAGGTCACCCCTT |
210 |
MIR398B/C |
TGTGTTCTCAGGTCACCCCTG |
174 |
MIR399A |
TGCCAAAGGAGATTTGCCCTG |
181 |
MIR399B/C |
TGCCAAAGGAGAGTTGCCCTG |
203 |
MIR399D |
TGCCAAAGGAGATTTGCCCCG |
172 |
MIR399E |
TGCCAAAGGAGATTTGCCTCG |
203 |
MIR399F |
TGCCAAAGGAGATTTGCCCGG |
190 |
MIR400 |
TATGAGAGTATTATAAGTCAC |
251 |
MIR401 |
CGAAACTGGTGTCGACCGACA |
247 |
MIR402 |
TTCGAGGCCTATTAAACCTCTG |
227 |
MIR403 |
TTAGATTCACGCACAAACTCG |
237 |
MIR404 |
ATTAACGCTGGCGGTTGCGGCAGC |
122 |
MIR405A/B/D |
ATGAGTTGGGTCTAACCCATAACT |
148 |
MIR406 |
TAGAATGCTATTGTAATCCAG |
230 |
MIR407 |
TTTAAATCATATACTTTTGGT |
251 |
MIR408 |
ATGCACTGCCTCTTCCCTGGC |
163 |
MIR413 |
ATAGTTTCTCTTGTTCTGCAC |
237 |
MIR414 |
TCATCTTCATCATCATCGTCA |
314 |
MIR415 |
AACAGAGCAGAAACAGAACAT |
258 |
MIR416 |
GGTTCGTACGTACACTGTTCA |
194 |
MIR417 |
GAAGGTAGTGAATTTGTTCGA |
238 |
MIR418 |
TAATGTGATGATGAACTGACC |
233 |
MIR419 |
TTATGAATGCTGAGGATGTTG |
239 |
MIR420 |
TAAACTAATCACGGAAATGCA |
240 |
MIR4221 |
TTTTCCTCTGTTGAATTCTTGC |
248 |
MIR4227 |
TCACTGGTACCAATCATTCCA |
210 |
MIR4228 |
ATAGCCTTGAACGCCGTCGTT |
183 |
MIR4239 |
TTTGTTATTTTCGCATGCTCC |
243 |
MIR4240 |
TGACTAGACCCGTAACATTAC |
217 |
MIR4243 |
TTGAAATTGTAGATTTCGTAC |
249 |
MIR426 |
TTTTGGAAATTTGTCCTTACG |
252 |
MIR447A/B |
TTGGGGACGAGATGTTTTGTTG |
246 |
MIR447C |
TTGGGGACGACATCTTTTGTTG |
242 |
MIR472 |
TTTTTCCTACTCCGCCCATACC |
237 |
MIR771 |
TGAGCCTCTGTGGTAGCCCTCA |
165 |
MIR773 |
TTTGCTTCCAGCTTTTGTCTC |
245 |
MIR773B |
TTTGATTCCAGCTTTTGTCTC |
239 |
MIR773B* |
GGCAATAACTTGAGCAAACA |
211 |
MIR774 |
TTGGTTACCCATATGGCCATC |
220 |
MIR774B |
TGAGATGAAGATATGGGTGAT |
245 |
MIR774B* |
CATCCATATTTTCATCTCGAA |
236 |
MIR775 |
TTCGATGTCTAGCAGTGCCA |
189 |
MIR776 |
TCTAAGTCTTCTATTGATGTT |
234 |
MIR777 |
TACGCATTGAGTTTCGTTGCTT |
175 |
MIR778 |
TGGCTTGGTTTATGTACACCG |
223 |
MIR779.1 |
TTCTGCTATGTTGCTGCTCAT |
235 |
MIR779.2 |
TGATTGGAAATTTCGTTGACT |
238 |
MIR780.1 |
TCTAGCAGCTGTTGAGCAGGT |
201 |
MIR780.2 |
TTCTTCGTGAATATCTGGCAT |
247 |
MIR781 |
TTAGAGTTTTCTGGATACTTA |
243 |
MIR782 |
ACAAACACCTTGGATGTTCTT |
202 |
MIR783 |
AAGCTTTGCTCGTTCATGTTC |
220 |
MIR822 |
TGCGGGAAGCATTTGCACATG |
212 |
MIR823 |
TGGGTGGTGATCATATAAGAT |
226 |
MIR824 |
TAGACCATTTGTGAGAAGGGA |
226 |
MIR825 |
TTCTCAAGAAGGTGCATGAAC |
220 |
MIR826 |
TAGTCCGGTTTTGGATACGTG |
224 |
MIR827 |
TTAGATGACCATCAACAAACT |
218 |
MIR828 |
TCTTGCTTAAATGAGTATTCCA |
226 |
MIR829.1 |
AGCTCTGATACCAAATGATGGAAT |
197 |
MIR829.2 |
CAAATTAAAGCTTCAAGGTAG |
239 |
MIR830 |
TAACTATTTTGAGAAGAAGTG |
246 |
MIR830* |
TCTTCTCCAAATAGTTTAGGTT |
224 |
MIR831 |
TGATCTCTTCGTACTCTTCTTG |
221 |
MIR832-3P |
TTGATTCCCAATCCAAGCAAG |
219 |
MIR832-5P |
TGCTGGGATCGGGAATCGAAA |
209 |
MIR833-3P |
TAGACCGATGTCAACAAACAAG |
203 |
MIR833-5P |
TGTTTGTTGTACTCGGTCTAGT |
266 |
MIR834 |
TGGTAGCAGTAGCGGTGGTAA |
245 |
MIR835-3P |
TGGAGAAGATACGCAAGAAAG |
248 |
MIR835-5P |
TTCTTGCATATGTTCTTTATC |
250 |
MIR836 |
TCCTGTGTTTCCTTTGATGCGTGG |
171 |
MIR837-3P |
AAACGAACAAAAAACTGATGG |
247 |
MIR837-5P |
ATCAGTTTCTTGTTCGTTTCA |
241 |
MIR838 |
TTTTCTTCTACTTCTTGCACA |
253 |
MIR839 |
TACCAACCTTTCATCGTTCCC |
174 |
MIR840 |
ACACTGAAGGACCTAAACTAAC |
183 |
MIR841 |
TACGAGCCACTTGAAACTGAA |
182 |
MIR841B |
TACGAGCCACTGGAAACTGAA |
181 |
MIR841B* |
CAATTTCTAGTGGGTCGTATT |
220 |
MIR842 |
TCATGGTCAGATCCGTCATCC |
235 |
MIR843 |
TTTAGGTCGAGCTTCATTGGA |
234 |
MIR844 |
TGGTAAGATTGCTTATAAGCT |
234 |
MIR844* |
TTATAAGCCATCTTACTAGTT |
226 |
MIR845A |
CGGCTCTGATACCAATTGATG |
235 |
MIR845B |
TCGCTCTGATACCAAATTGATG |
229 |
MIR846 |
TTGAATTGAAGTGCTTGAATT |
252 |
MIR847 |
TCACTCCTCTTCTTCTTGATG |
214 |
MIR848 |
TGACATGGGACTGCCTAAGCTA |
177 |
MIR849 |
TAACTAAACATTGGTGTAGTA |
236 |
MIR850 |
TAAGATCCGGACTACAACAAAG |
219 |
MIR851-3P |
TGGGTGGCAAACAAAGACGAC |
238 |
MIR851-5P |
TCTCGGTTCGCGATCCACAAG |
172 |
MIR852 |
AAGATAAGCGCCTTAGTTCTG |
221 |
MIR853 |
TCCCCTCTTTAGCTTGGAGAAG |
138 |
MIR854A-E |
GATGAGGATAGGGAGGAGGAG |
257 |
MIR855 |
AGCAAAAGCTAAGGAAAAGGAA |
269 |
MIR856 |
TAATCCTACCAATAACTTCAGC |
201 |
MIR857 |
TTTTGTATGTTGAAGGTGTAT |
270 |
MIR858 |
TTTCGTTGTCTGTTCGACCTT |
244 |
MIR859 |
TCTCTCTGTTGTGAAGTCAAA |
267 |
MIR860 |
TCAATAGATTGGACTATGTAT |
215 |
MIR861-3P |
GATGGATATGTCTTCAAGGAC |
244 |
MIR861-5P |
CCTTGGAGAAATATGCGTCAA |
202 |
MIR862-3P |
ATATGCTGGATCTACTTGAAG |
237 |
MIR862-5P |
TCCAATAGGTCGAGCATGTGC |
144 |
MIR863-3P |
TTGAGAGCAACAAGACATAAT |
242 |
MIR863-5P |
TTATGTCTTGTTGATCTCAAT |
241 |
MIR864-3P |
TAAAGTCAATAATACCTTGAAG |
232 |
MIR864-5P |
TCAGGTATGATTGACTTCAAA |
244 |
MIR865-3P |
TTTTTCCTCAAATTTATCCAA |
247 |
MIR865-5P |
ATGAATTTGGATCTAATTGAG |
246 |
MIR866-3P |
ACAAAATCCGTCTTTGAAGA |
234 |
MIR866-5P |
TCAAGGAACGGATTTTGTTAA |
242 |
MIR867 |
TTGAACATGGTTTATTAGGAA |
241 |
MIR868 |
CTTCTTAAGTGCTGATAATGC |
242 |
MIR869.1 |
ATTGGTTCAATTCTGGTGTTG |
244 |
MIR869.2 |
TCTGGTGTTGAGATAGTTGAC |
236 |
MIR870 |
TAATTTGGTGTTTCTTCGATC |
234 |
Total number of genomic hits for 190 different screening sequences: |
41,965 |
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10,442 genes were predicted to be post-transcriptionally regulated by microRNAs
since their transcribed regions are targets of at least one microRNA in antisense
orientation. 3,008 genes are in common with
the 9,166 predicted small RNA regulated genes, and a total number of 16,600
different genes are predicted targets of either small RNAs or microRNAs in
antisense orientation. The complete lists of genes predicted to be down-regulated
by microRNAs can be downloaded as text files:
10442.txt;
3008.txt;
16600.txt.
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