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BaseInfo

ncRNA ID	ath-miR172a
Species	Arabidopsis thaliana
Class	miRNA
Genome position	chr2:11942914-11943015 [-]
Reference genome	TAIR10
Source	miRBase
Length	21
Mature sequence(if miRNA)	5 - AGAAUCUUGAUGAUGCUGCAU - 25
Stem-loop(if miRNA)	--U C  UG               A   CUG   AUGGACGGUGGUGAUUCA    G UG  GCAUCAUCAAGAUUC CAU   UUG                  C    | ||  ||||||||||||||| |||   |||    C AC  CGUAGUAGUUCUAAG GUA   AAG                  U CGG U  GU               A   --A   UAUCUCUUGAAACACCUC
Stem-loop sequence	UGCUGUGGCAUCAUCAAGAUUCACAUCUGUUGAUGGACGGUGGUGAUUCACUCUCCACAAAGUUCUCUAUGAAAAUGAGAAUCUUGAUGAUGCUGCAUCGGC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BT001916.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:1280   AUGCAGCAUCAUCAGGAUUCU   1300 Target Full Sequence	1.5	Arabidopsis thaliana clone C105157 putative APETALA2 protein (At5g60120) mRNA, complete cds	NA	coding protein	psRNATarget
AY074373.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:1643   AUGCAGCAUCAUCAGGAUUCU   1663 Target Full Sequence	1.5	Arabidopsis thaliana At5g60120 mRNA sequence	NA	coding protein	psRNATarget
NM_001345393.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:1723   AUGCAGCAUCAUCAGGAUUCU   1743 Target Full Sequence	1.5	Arabidopsis thaliana target of early activation tagged (EAT) 2 (TOE2), mRNA	target of early activation tagged (EAT) 2(TOE2)	coding protein	psRNATarget
NM_125405.4	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:1744   AUGCAGCAUCAUCAGGAUUCU   1764 Target Full Sequence	1.5	Arabidopsis thaliana target of early activation tagged (EAT) 2 (TOE2), mRNA	target of early activation tagged (EAT) 2(TOE2)	coding protein	psRNATarget
NM_001203647.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:1810   AUGCAGCAUCAUCAGGAUUCU   1830 Target Full Sequence	1.5	Arabidopsis thaliana target of early activation tagged (EAT) 2 (TOE2), mRNA	target of early activation tagged (EAT) 2(TOE2)	coding protein	psRNATarget
NM_001345392.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:1944   AUGCAGCAUCAUCAGGAUUCU   1964 Target Full Sequence	1.5	Arabidopsis thaliana target of early activation tagged (EAT) 2 (TOE2), mRNA	target of early activation tagged (EAT) 2(TOE2)	coding protein	psRNATarget
NM_001345391.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:2127   AUGCAGCAUCAUCAGGAUUCU   2147 Target Full Sequence	1.5	Arabidopsis thaliana target of early activation tagged (EAT) 2 (TOE2), mRNA	target of early activation tagged (EAT) 2(TOE2)	coding protein	psRNATarget
NM_001345390.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   ||||||||||||||=|||||| targets:1944   AUGCAGCAUCAUCAGGAUUCU   1964 Target Full Sequence	1.5	Arabidopsis thaliana target of early activation tagged (EAT) 2 (TOE2), mRNA	target of early activation tagged (EAT) 2(TOE2)	coding protein	psRNATarget
AY128328.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *|||||||||||||=|||||| targets:520   CUGCAGCAUCAUCAGGAUUCU   540 Target Full Sequence	1.5	Arabidopsis thaliana APETALA2 protein (At4g36920) mRNA, complete cds	NA	coding protein	psRNATarget
U12546.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *|||||||||||||=|||||| targets:1367   CUGCAGCAUCAUCAGGAUUCU   1387 Target Full Sequence	1.5	Arabidopsis thaliana Columbia homeotic APETALA2 protein (APETALA2) mRNA, complete cds	NA	coding protein	psRNATarget
NM_001204009.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *|||||||||||||=|||||| targets:1293   CUGCAGCAUCAUCAGGAUUCU   1313 Target Full Sequence	1.5	Arabidopsis thaliana Integrase-type DNA-binding superfamily protein (AP2), mRNA	Integrase-type DNA-binding superfamily protein(AP2)	coding protein	psRNATarget
NM_119856.3	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *|||||||||||||=|||||| targets:1452   CUGCAGCAUCAUCAGGAUUCU   1472 Target Full Sequence	1.5	Arabidopsis thaliana Integrase-type DNA-binding superfamily protein (AP2), mRNA	Integrase-type DNA-binding superfamily protein(AP2)	coding protein	psRNATarget
AF003100.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1127   CAGCAGCAUCAUCAGGAUUCU   1147 Target Full Sequence	1.5	Arabidopsis thaliana AP2 domain containing protein RAP2.7 mRNA, partial cds	NA	coding protein	psRNATarget
AF325074.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1265   CAGCAGCAUCAUCAGGAUUCU   1285 Target Full Sequence	1.5	Arabidopsis thaliana putative AP2 domain transcription factor (At2g28550) mRNA, complete cds	NA	coding protein	psRNATarget
AY091418.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1265   CAGCAGCAUCAUCAGGAUUCU   1285 Target Full Sequence	1.5	Arabidopsis thaliana putative AP2 domain transcription factor (At2g28550) mRNA, complete cds	NA	coding protein	psRNATarget
BX820052.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1544   CAGCAGCAUCAUCAGGAUUCU   1564 Target Full Sequence	1.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTLS68ZH07 of Adult vegetative tissue of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
BX820568.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1596   CAGCAGCAUCAUCAGGAUUCU   1616 Target Full Sequence	1.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTPGH48ZH11 of Hormone Treated Callus of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
AY050815.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1555   CAGCAGCAUCAUCAGGAUUCU   1575 Target Full Sequence	1.5	Arabidopsis thaliana putative AP2 domain transcription factor (At2g28550) mRNA, complete cds	NA	coding protein	psRNATarget
NM_001336171.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1780   CAGCAGCAUCAUCAGGAUUCU   1800 Target Full Sequence	1.5	Arabidopsis thaliana related to AP2.7 (RAP2.7), mRNA	related to AP2.7(RAP2.7)	coding protein	psRNATarget
NM_001336170.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1671   CAGCAGCAUCAUCAGGAUUCU   1691 Target Full Sequence	1.5	Arabidopsis thaliana related to AP2.7 (RAP2.7), mRNA	related to AP2.7(RAP2.7)	coding protein	psRNATarget
NM_128415.5	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1638   CAGCAGCAUCAUCAGGAUUCU   1658 Target Full Sequence	1.5	Arabidopsis thaliana related to AP2.7 (RAP2.7), mRNA	related to AP2.7(RAP2.7)	coding protein	psRNATarget
NM_001202696.2	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1683   CAGCAGCAUCAUCAGGAUUCU   1703 Target Full Sequence	1.5	Arabidopsis thaliana related to AP2.7 (RAP2.7), mRNA	related to AP2.7(RAP2.7)	coding protein	psRNATarget
NM_001336169.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1790   CAGCAGCAUCAUCAGGAUUCU   1810 Target Full Sequence	1.5	Arabidopsis thaliana related to AP2.7 (RAP2.7), mRNA	related to AP2.7(RAP2.7)	coding protein	psRNATarget
NM_001336168.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   **||||||||||||=|||||| targets:1896   CAGCAGCAUCAUCAGGAUUCU   1916 Target Full Sequence	1.5	Arabidopsis thaliana related to AP2.7 (RAP2.7), mRNA	related to AP2.7(RAP2.7)	coding protein	psRNATarget
JA894829.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *||*||||||||||||||||* targets:16   UUGGAGCAUCAUCAAGAUUCA   36 Target Full Sequence	2.0	Sequence 146 from Patent WO2011067745	NA	coding protein	psRNATarget
NM_115356.2	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *|||||||||||||=|||||* targets:965   UUGCAGCAUCAUCAGGAUUCC   985 Target Full Sequence	2.5	Arabidopsis thaliana Integrase-type DNA-binding superfamily protein (SMZ), partial mRNA	Integrase-type DNA-binding superfamily protein(SMZ)	coding protein	psRNATarget
AY576275.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *|||||||||||||=|||||* targets:965   UUGCAGCAUCAUCAGGAUUCC   985 Target Full Sequence	2.5	Arabidopsis thaliana AP2 domain transcription factor (SMZ) mRNA, complete cds	NA	coding protein	psRNATarget
AK118705.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *||==|||||||||||||||* targets:592   CUGUGGCAUCAUCAAGAUUCA   612 Target Full Sequence	3.0	Arabidopsis thaliana mRNA for unknown protein, complete cds, clone: RAFL21-01-E23	NA	coding protein	psRNATarget
BX820161.1	ncRNA:21   UACGUCGUAGUAGUUCUAAGA   1   *||==|||||||||||||||* targets:586   CUGUGGCAUCAUCAAGAUUCA   606 Target Full Sequence	3.0	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTLS83ZF07 of Adult vegetative tissue of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget

Reference

1	PMID:12225663 "CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana"; Park W, Li J, Song R, Messing J, Chen X; Curr Biol. 12:1484-1495(2002).
2	PMID:12226481 "Short RNAs can identify new candidate transposable element families in Arabidopsis"; Mette MF, van der Winden J, Matzke M, Matzke AJ; Plant Physiol. 130:6-9(2002).
3	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).
4	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).
5	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).
6	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).