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BaseInfo

ncRNA ID	novel_zma_miR1271
Species	Zea mays
Class	miRNA
Genome position	Chr7:73772246-73772318 [+]
Reference genome	RefGen_v4
Source	SRR2089710;SRR1997865;SRR1997866;SRR2089707
Length	24
Mature sequence(if miRNA)	50 - GCCGGACUGUCCGGUGCACUAGGA - 73
Stem-loop(if miRNA)	--    A        GU        --GCA      A   CUGG GCAUCGGA  GUCCGGUG     CACCGG C   |||| ||||||||  ||||||||     |||||| U   GAUC CGUGGCCU  CAGGCCGC     GUGGCC G AG    A        GU        AUACC      U
Stem-loop sequence	CUGGAGCAUCGGAGUGUCCGGUGGCACACCGGACUGUCCGGUGCCAUACGCCGGACUGUCCGGUGCACUAGGA

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
JB169871.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=||||||||||||||||||= targets:91   CCCUGGUGCACCGGACAGUCCGGU   114 Target Full Sequence	1.0	Sequence 7535 from Patent EP2559767	NA	coding protein	psRNATarget
JB169871.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|**|||||||||||||||= targets:8   UCCACUGGCACACCGGACAGUCCGGU   33 Target Full Sequence	3.0	Sequence 7535 from Patent EP2559767	NA	coding protein	psRNATarget
LQ241540.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=||||||||||||||||||= targets:91   CCCUGGUGCACCGGACAGUCCGGU   114 Target Full Sequence	1.0	Sequence 7535 from Patent EP2985353	NA	coding protein	psRNATarget
LQ241540.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|**|||||||||||||||= targets:8   UCCACUGGCACACCGGACAGUCCGGU   33 Target Full Sequence	3.0	Sequence 7535 from Patent EP2985353	NA	coding protein	psRNATarget
HI409410.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=||||||||||||||||||= targets:91   CCCUGGUGCACCGGACAGUCCGGU   114 Target Full Sequence	1.0	Sequence 7535 from Patent EP2074227	NA	coding protein	psRNATarget
HI409410.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|**|||||||||||||||= targets:8   UCCACUGGCACACCGGACAGUCCGGU   33 Target Full Sequence	3.0	Sequence 7535 from Patent EP2074227	NA	coding protein	psRNATarget
BT069074.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=||||||||||||||||||= targets:761   CCCUGGUGCACCGGACAGUCCGGU   784 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0158J22 mRNA, complete cds	NA	coding protein	psRNATarget
BT086229.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=||||||||||||||||||= targets:828   GCCUGGUGCACCGGACAGUCCGGU   851 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFc0134M03 mRNA, complete cds	NA	coding protein	psRNATarget
BT086229.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ***|=|||||||||||||||=||= targets:405   GAGUGGUGCACCGGACAGUCUGGU   428 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0134M03 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001174416.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=||||||||||||||||||= targets:819   UCCGCUGGUGCACCGGACAGUCCGGU   844 Target Full Sequence	1.0	Zea mays uncharacterized LOC100381596 (LOC100381596), mRNA	NA	coding protein	psRNATarget
NM_001174416.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   **=*=||||||||||||||||||= targets:587   GAUGGGUGCACCGGACAGUCCGGU   610 Target Full Sequence	1.0	Zea mays uncharacterized LOC100381596 (LOC100381596), mRNA	NA	coding protein	psRNATarget
BT061709.2	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=||||||||||||||||||= targets:819   UCCGCUGGUGCACCGGACAGUCCGGU   844 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0176K17 mRNA, complete cds	NA	coding protein	psRNATarget
BT061709.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   **=*=||||||||||||||||||= targets:587   GAUGGGUGCACCGGACAGUCCGGU   610 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0176K17 mRNA, complete cds	NA	coding protein	psRNATarget
BT066013.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=|*||||||||||||||||= targets:778   GCCUGGCGCACCGGACAGUCCGGU   801 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0155M15 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175715.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=|*||||||||||||||||= targets:778   GCCUGGCGCACCGGACAGUCCGGU   801 Target Full Sequence	2.0	Zea mays uncharacterized LOC100383038 (LOC100383038), mRNA	NA	coding protein	psRNATarget
NM_001176621.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=|||||||*||||||||||= targets:495   GCCUGGUGCACCUGACAGUCCGGU   518 Target Full Sequence	2.5	Zea mays uncharacterized LOC100384010 (LOC100384010), mRNA	NA	coding protein	psRNATarget
BT068871.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=|||||||*||||||||||= targets:495   GCCUGGUGCACCUGACAGUCCGGU   518 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0146G02 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175687.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=|*||||||||||||||||= targets:503   GCCUGGCGCACCGGACAGUCCGGU   526 Target Full Sequence	2.0	Zea mays uncharacterized LOC100383005 (LOC100383005), mRNA	NA	coding protein	psRNATarget
NM_001175687.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   **=|=|*||||||||||||||||= targets:599   CGUUGGCGCACCGGACAGUCCGGU   622 Target Full Sequence	2.0	Zea mays uncharacterized LOC100383005 (LOC100383005), mRNA	NA	coding protein	psRNATarget
BT065921.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|||=|*||||||||||||||||= targets:503   GCCUGGCGCACCGGACAGUCCGGU   526 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0044K19 mRNA, complete cds	NA	coding protein	psRNATarget
BT065921.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   **=|=|*||||||||||||||||= targets:599   CGUUGGCGCACCGGACAGUCCGGU   622 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0044K19 mRNA, complete cds	NA	coding protein	psRNATarget
LQ242243.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ***|=||||||||||||||||||= targets:147   GAGUGGUGCACCGGACAGUCCGGU   170 Target Full Sequence	1.0	Sequence 8238 from Patent EP2985353	NA	coding protein	psRNATarget
JB170574.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ***|=||||||||||||||||||= targets:147   GAGUGGUGCACCGGACAGUCCGGU   170 Target Full Sequence	1.0	Sequence 8238 from Patent EP2559767	NA	coding protein	psRNATarget
HI410113.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ***|=||||||||||||||||||= targets:147   GAGUGGUGCACCGGACAGUCCGGU   170 Target Full Sequence	1.0	Sequence 8238 from Patent EP2074227	NA	coding protein	psRNATarget
EU950973.1	ncRNA:24   AGGAU-CACGUGGCCUGUCAGGCCG   1   |||*=-||||||||||||||||||= targets:180   UCCGGUGUGCACCGGACAGUCCGGU   204 Target Full Sequence	3.0	Zea mays clone 677173 mRNA sequence	NA	coding protein	psRNATarget
EZ071967.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:46   UCCGGUGGUGCACCGGACUGUCCGGU   71 Target Full Sequence	2.5	TSA: Zea mays contig07604, mRNA sequence	NA	coding protein	psRNATarget
EZ105730.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:58   UCCGGUGGUGCACCGGACUGUCCGGU   83 Target Full Sequence	2.5	TSA: Zea mays contig41388, mRNA sequence	NA	coding protein	psRNATarget
LQ242124.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:107   UCCGGUGGUGCACCGGACUGUCCGGU   132 Target Full Sequence	2.5	Sequence 8119 from Patent EP2985353	NA	coding protein	psRNATarget
JB170455.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:107   UCCGGUGGUGCACCGGACUGUCCGGU   132 Target Full Sequence	2.5	Sequence 8119 from Patent EP2559767	NA	coding protein	psRNATarget
HI409994.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:107   UCCGGUGGUGCACCGGACUGUCCGGU   132 Target Full Sequence	2.5	Sequence 8119 from Patent EP2074227	NA	coding protein	psRNATarget
BT037301.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:977   UCCGGUGGUGCACCGGACUGUCCGGU   1002 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0161O03 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001309905.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:1149   UCCGGUGGUGCACCGGACUGUCCGGU   1174 Target Full Sequence	2.5	Zea mays uncharacterized LOC100216760 (LOC100216760), mRNA	NA	coding protein	psRNATarget
EZ109324.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:32   UCCGGUGGUGCACCGGACUGUCCGGU   57 Target Full Sequence	2.5	TSA: Zea mays contig44983, mRNA sequence	NA	coding protein	psRNATarget
EU960150.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:1319   UCCGGUGGUGCACCGGACUGUCCGGU   1344 Target Full Sequence	2.5	Zea mays clone 222169 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
BT064005.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:1408   UCCGGUGGUGCACCGGACUGUCCGGU   1433 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0130B19 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175099.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:1408   UCCGGUGGUGCACCGGACUGUCCGGU   1433 Target Full Sequence	2.5	Zea mays uncharacterized LOC100382353 (LOC100382353), mRNA	NA	coding protein	psRNATarget
BT068112.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *=||=|*||||||||||||||||= targets:374   GUCUGGCGCACCGGACAGUCCGGU   397 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0045K13 mRNA, complete cds	NA	coding protein	psRNATarget
EU962912.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:419   UCCGGUGGUGCACCGGACUGUCCGGU   444 Target Full Sequence	2.5	Zea mays clone 246496 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175661.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:1287   UCCGGUGGUGCACCGGACUGUCCGGU   1312 Target Full Sequence	2.5	Zea mays uncharacterized LOC100382977 (LOC100382977), mRNA	NA	coding protein	psRNATarget
BT065862.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|||||||||||*||||||= targets:1287   UCCGGUGGUGCACCGGACUGUCCGGU   1312 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0155J05 mRNA, complete cds	NA	coding protein	psRNATarget
BT066811.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *=||=|*||||||||||||||||= targets:579   AUCUGGCGCACCGGACAGUCCGGU   602 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0073A15 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175949.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *=||=|*||||||||||||||||= targets:579   AUCUGGCGCACCGGACAGUCCGGU   602 Target Full Sequence	2.0	Zea mays uncharacterized LOC100383289 (LOC100383289), mRNA	NA	coding protein	psRNATarget
EU940974.1	ncRNA:24   AG--GAUCACGUGGCCUGUCAGGCCG   1   ||--||=|*||||||||||||||||= targets:2536   UCGACUGGCGCACCGGACAGUCCGGU   2561 Target Full Sequence	2.0	Zea mays clone 1225259 mRNA sequence	NA	coding protein	psRNATarget
BT038885.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ***|=|||||||||||=||||||= targets:932   AAAUGGUGCACCGGACGGUCCGGU   955 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0337O17 mRNA, complete cds	NA	coding protein	psRNATarget
EU968231.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ***|=|||||||||||=||||||= targets:1303   AAAUGGUGCACCGGACGGUCCGGU   1326 Target Full Sequence	2.5	Zea mays clone 317172 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
JB169821.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:12   UCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 7485 from Patent EP2559767	NA	coding protein	psRNATarget
LQ242061.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:12   UCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 8056 from Patent EP2985353	NA	coding protein	psRNATarget
HI409931.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:12   UCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 8056 from Patent EP2074227	NA	coding protein	psRNATarget
LQ241490.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:12   UCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 7485 from Patent EP2985353	NA	coding protein	psRNATarget
HI409360.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:12   UCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 7485 from Patent EP2074227	NA	coding protein	psRNATarget
JB170392.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:12   UCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 8056 from Patent EP2559767	NA	coding protein	psRNATarget
EU943461.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   ||=--|=|||||||||||*||||||= targets:1393   UCUGGUGGUGCACCGGACUGUCCGGU   1418 Target Full Sequence	2.5	Zea mays clone 1624403 mRNA sequence	NA	coding protein	psRNATarget
NM_001152406.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |=|--|=|||||||||||*||||||= targets:1557   UUCGGUGGUGCACCGGACUGUCCGGU   1582 Target Full Sequence	2.5	Zea mays uncharacterized LOC100279393 (LOC100279393), mRNA	NA	coding protein	psRNATarget
BT054171.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |=|--|=|||||||||||*||||||= targets:1557   UUCGGUGGUGCACCGGACUGUCCGGU   1582 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0148C07 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001165861.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   **|*=|*||||||||||||||||= targets:330   CACGGGCGCACCGGACAGUCCGGU   353 Target Full Sequence	2.0	Zea mays uncharacterized LOC100304427 (LOC100304427), mRNA	NA	coding protein	psRNATarget
BT061124.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   **|*=|*||||||||||||||||= targets:330   CACGGGCGCACCGGACAGUCCGGU   353 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0108N24 mRNA, complete cds	NA	coding protein	psRNATarget
BT019242.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:633   UCUGGGUGCACCGGACUGUCCGGU   656 Target Full Sequence	2.5	Zea mays clone Contig915.F mRNA sequence	NA	coding protein	psRNATarget
BT083610.2	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|*|=|*||||||||||||||||= targets:473   GCAUGGCGCACCGGACAGUCCGGU   496 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0019A02 mRNA, complete cds	NA	coding protein	psRNATarget
BT083610.2	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |||--|=|**|||||||||||||||= targets:693   UCCGCUGGCACACCGGACAGUCCGGU   718 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFb0019A02 mRNA, complete cds	NA	coding protein	psRNATarget
BT066975.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:2164   UCUGGGUGCACCGGACUGUCCGGU   2187 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0133B08 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001176009.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ||=*=|||||||||||*||||||= targets:2164   UCUGGGUGCACCGGACUGUCCGGU   2187 Target Full Sequence	2.5	Zea mays uncharacterized LOC100383353 (LOC100383353), mRNA	NA	coding protein	psRNATarget
EZ066204.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *|*|=|*||||||||||||||||= targets:89   GCAUGGCGCACCGGACAGUCCGGU   112 Target Full Sequence	2.0	TSA: Zea mays contig01838, mRNA sequence	NA	coding protein	psRNATarget
EZ109126.1	ncRNA:24   AGG--AUCACGUGGCCUGUCAGGCCG   1   |==--|=|*||||||||||||||||= targets:171   UUUGAUGGCGCACCGGACAGUCCGGU   196 Target Full Sequence	2.0	TSA: Zea mays contig44785, mRNA sequence	NA	coding protein	psRNATarget
EZ065990.1	ncRNA:21   AUCACGUGGCCUGUCAGGCCG   1   |=|*||||||||||||||||= targets:1   UGGCGCACCGGACAGUCCGGU   21 Target Full Sequence	2.0	TSA: Zea mays contig01624, mRNA sequence	NA	coding protein	psRNATarget
EU964336.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   *=||=|*|||||||||*||||||| targets:256   GUCUGGGGCACCGGACUGUCCGGC   279 Target Full Sequence	2.5	Zea mays clone 278065 mRNA sequence	NA	coding protein	psRNATarget
EU943181.1	ncRNA:24   AGGAUCACGUGGCCUGUCAGGCCG   1   ***|=|||||||||||*||||||= targets:930   GGGUGGUGCACCGGACUGUCCGGU   953 Target Full Sequence	2.5	Zea mays clone 1580698 mRNA sequence	NA	coding protein	psRNATarget