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BaseInfo

ncRNA ID	ath-miR169c
Species	Arabidopsis thaliana
Class	miRNA
Genome position	chr5:15870590-15871000 [-]
Reference genome	TAIR10
Source	miRBase
Length	21
Mature sequence(if miRNA)	279 - CAGCCAAGGAUGACUUGCCGG - 299
Stem-loop(if miRNA)	U  GA      -    -    --UA    -------A  U   AGA  GAAAAUGAAGGUGUGAAUGGAUUGUCUCAUCUAAAGCCUUGAAUGUGGGAAAAAGGCCAUUGUUGUUCAGCCAAGGAUGACUUGCCGGUAGCUUGUAUUAUGAUUACUCUAUAUUCGAUUUAUAUUAUGGAGAUGAUGGUUUAUAUAUAUUUACUU UCGUCCAU AU  GUAUUA AUUA UGGU    GGGA        UC UAC   AU                                                                                                                                                            A |||||||| ||  |||||| |||| ||||    ||||        || |||   || AGUAGGUA UA  UAUAGU UAAU ACUA    CCCU        CA AGU   AG                                                                                                                                                            U         -  AG      A    C    UAAA    AAAAAAUG  C   ---  CAUUCGGAUCUUACUCUCCUUCUCUGUCAACGUAUCGGUAUCUACUGAACGGCCCGAUCGAACCAAUGUGAAGAACGGGGUUGUGUGUAUAUAUUUAUUCAUUUAUGAAAAAGCAUAAUAUAAUGCAUGCUUUUUUUUAGUUGAUUUUGAUACAUC
Stem-loop sequence	UCGUCCAUUAUGAGUAUUAAUUAUGGUUAGGGAAUCUUACAGAAUGAAAAUGAAGGUGUGAAUGGAUUGUCUCAUCUAAAGCCUUGAAUGUGGGAAAAAGGCCAUUGUUGUUCAGCCAAGGAUGACUUGCCGGUAGCUUGUAUUAUGAUUACUCUAUAUUCGAUUUAUAUUAUGGAGAUGAUGGUUUAUAUAUAUUUACUUAUCUACAUAGUUUUAGUUGAUUUUUUUUCGUACGUAAUAUAAUACGAAAAAGUAUUUACUUAUUUAUAUAUGUGUGUUGGGGCAAGAAGUGUAACCAAGCUAGCCCGGCAAGUCAUCUAUGGCUAUGCAACUGUCUCUUCCUCUCAUUCUAGGCUUACGAUGACACGUAAAAAAUCCCAAAUAUCACUAAUAUGAUAUGAAUAUGGAUGA

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BX813919.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||| targets:1199   AAGGGAAGUCAUCCUUGGCUG   1219 Target Full Sequence	1.0	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTFB47ZG01 of Flowers and buds of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
AY088950.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||| targets:1232   AAGGGAAGUCAUCCUUGGCUG   1252 Target Full Sequence	1.0	Arabidopsis thaliana clone 106674 mRNA, complete sequence	NA	coding protein	psRNATarget
NM_202121.2	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||| targets:1305   AAGGGAAGUCAUCCUUGGCUG   1325 Target Full Sequence	1.0	Arabidopsis thaliana nuclear factor Y, subunit A8 (NF-YA8), mRNA	nuclear factor Y, subunit A8(NF-YA8)	coding protein	psRNATarget
NM_101621.3	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||| targets:1319   AAGGGAAGUCAUCCUUGGCUG   1339 Target Full Sequence	1.0	Arabidopsis thaliana nuclear factor Y, subunit A8 (NF-YA8), mRNA	nuclear factor Y, subunit A8(NF-YA8)	coding protein	psRNATarget
NM_001198095.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||| targets:1505   AAGGGAAGUCAUCCUUGGCUG   1525 Target Full Sequence	1.0	Arabidopsis thaliana nuclear factor Y, subunit A8 (NF-YA8), mRNA	nuclear factor Y, subunit A8(NF-YA8)	coding protein	psRNATarget
BX815988.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||| targets:1623   AAGGGAAGUCAUCCUUGGCUG   1643 Target Full Sequence	1.0	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTPGH20ZH03 of Hormone Treated Callus of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
NM_202122.2	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||| targets:1661   AAGGGAAGUCAUCCUUGGCUG   1681 Target Full Sequence	1.0	Arabidopsis thaliana nuclear factor Y, subunit A8 (NF-YA8), mRNA	nuclear factor Y, subunit A8(NF-YA8)	coding protein	psRNATarget
AF386957.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   *|||*|||||||||||||||* targets:1193   ACGGGAAGUCAUCCUUGGCUA   1213 Target Full Sequence	2.0	Arabidopsis thaliana Unknown protein (F15I1.26) mRNA, complete cds	NA	coding protein	psRNATarget
NM_104294.3	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   *|||*|||||||||||||||* targets:1284   ACGGGAAGUCAUCCUUGGCUA   1304 Target Full Sequence	2.0	Arabidopsis thaliana nuclear factor Y, subunit A5 (NF-YA5), mRNA	nuclear factor Y, subunit A5(NF-YA5)	coding protein	psRNATarget
AY140028.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1258   AGGGGAAGUCAUCCUUGGCUA   1278 Target Full Sequence	2.0	Arabidopsis thaliana CCAAT-binding factor B subunit-like protein, putative (At1g72830) mRNA, complete cds	NA	coding protein	psRNATarget
NM_001338098.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1271   AAGGGAAGUCAUCCUUGGCUA   1291 Target Full Sequence	2.0	Arabidopsis thaliana nuclear factor Y, subunit A6 (NF-YA6), mRNA	nuclear factor Y, subunit A6(NF-YA6)	coding protein	psRNATarget
Y13722.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1319   AGGGGAAGUCAUCCUUGGCUA   1339 Target Full Sequence	2.0	Arabidopsis thaliana mRNA for Hap2c transcription factor	NA	coding protein	psRNATarget
NM_001334553.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1368   AGGGGAAGUCAUCCUUGGCUA   1388 Target Full Sequence	2.0	Arabidopsis thaliana nuclear factor Y, subunit A3 (NF-YA3), mRNA	nuclear factor Y, subunit A3(NF-YA3)	coding protein	psRNATarget
AY057539.1	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1487   AGGGGAAGUCAUCCUUGGCUA   1507 Target Full Sequence	2.0	Arabidopsis thaliana At1g72830/F3N23_3 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001036195.5	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1413   AGGGGAAGUCAUCCUUGGCUA   1433 Target Full Sequence	2.0	Arabidopsis thaliana nuclear factor Y, subunit A3 (NF-YA3), mRNA	nuclear factor Y, subunit A3(NF-YA3)	coding protein	psRNATarget
NM_112256.3	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1624   AAGGGAAGUCAUCCUUGGCUA   1644 Target Full Sequence	2.0	Arabidopsis thaliana nuclear factor Y, subunit A6 (NF-YA6), mRNA	nuclear factor Y, subunit A6(NF-YA6)	coding protein	psRNATarget
NM_105941.8	ncRNA:21   GGCCGUUCAGUAGGAACCGAC   1   **||*|||||||||||||||* targets:1741   AGGGGAAGUCAUCCUUGGCUA   1761 Target Full Sequence	2.0	Arabidopsis thaliana nuclear factor Y, subunit A3 (NF-YA3), mRNA	nuclear factor Y, subunit A3(NF-YA3)	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).