Search result

BaseInfo

ncRNA ID	novel_zma_miR539
Species	Zea mays
Class	miRNA
Genome position	Chr8:118252854-118253064 [-]
Reference genome	RefGen_v4
Source	SRR2089709;SRR2089710;SRR2089713;SRR2089714;SRR2287031;SRR2287162;SRR2287164;SRR2287165;SRR4237225;SRR5451003;SRR5451004;SRR5451005;SRR5451006;SRR2089700;SRR2089705;SRR2089707
Length	24
Mature sequence(if miRNA)	1 - ACAGAAGGACUGCUUGCAUAACAG - 24
Stem-loop(if miRNA)	-- C                                         C        UAGAU   -   C       A   CACAUUUAACACUUAAACCCUUCCACCACCA   G UAUGCAAGCAGUCCUUCUGUGCAAGCGUGCAAGCAAACCAU UGAUCCAU     CGC GAU CAACCGU GGU                               G   | ||||||||||||||||||||||||||||||||||||||||| ||||||||     ||| ||| ||||||| |||   C AUACGUUCGUCAGGAAGACACGUUCGCACGUUCGUUUGGUA AUUAGGUG     GUG CUA GUUGGUA CCA                               C GA A                                         U        -----   U   U       -   AACAAUCCCCAAAAAAAUAUUUCUAAUAACU
Stem-loop sequence	GCUAUGCAAGCAGUCCUUCUGUGCAAGCGUGCAAGCAAACCAUCUGAUCCAUUAGAUCGCGAUCCAACCGUAGGUCACAUUUAACACUUAAACCCUUCCACCACCAGCUCAAUAAUCUUUAUAAAAAAACCCCUAACAAACCAUGGUUGUAUCUGUGGUGGAUUAUAUGGUUUGCUUGCACGCUUGCACAGAAGGACUGCUUGCAUAACAG

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
LQ235317.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||||||| targets:5   CUGUUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 1312 from Patent EP2985353	NA	coding protein	psRNATarget
JB163648.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||||||| targets:5   CUGUUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 1312 from Patent EP2559767	NA	coding protein	psRNATarget
HI403187.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||||||| targets:5   CUGUUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 1312 from Patent EP2074227	NA	coding protein	psRNATarget
XM_008680394.2	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||||||| targets:91   CUGUUAUGCAAGCAGUCCUUCUGU   114 Target Full Sequence	0.0	PREDICTED: Zea mays mini zinc finger protein 4 (LOC103653502), mRNA	NA	coding protein	psRNATarget
LQ235063.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   ||||||||=||||||||||||||| targets:5   CUGUUAUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	1.0	Sequence 1058 from Patent EP2985353	NA	coding protein	psRNATarget
HI402933.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   ||||||||=||||||||||||||| targets:5   CUGUUAUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	1.0	Sequence 1058 from Patent EP2074227	NA	coding protein	psRNATarget
JB163394.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   ||||||||=||||||||||||||| targets:5   CUGUUAUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	1.0	Sequence 1058 from Patent EP2559767	NA	coding protein	psRNATarget
HI403147.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:5   CUGCUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 1272 from Patent EP2074227	NA	coding protein	psRNATarget
JB163608.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:5   CUGCUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 1272 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235277.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:5   CUGCUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 1272 from Patent EP2985353	NA	coding protein	psRNATarget
LQ241182.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:5   CUGCUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 7177 from Patent EP2985353	NA	coding protein	psRNATarget
HI409052.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:5   CUGCUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 7177 from Patent EP2074227	NA	coding protein	psRNATarget
JB169513.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:5   CUGCUAUGCAAGCAGUCCUUCUGU   28 Target Full Sequence	0.0	Sequence 7177 from Patent EP2559767	NA	coding protein	psRNATarget
BT066599.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:639   CUGGUAUGCAAGCAGUCCUUCUGU   662 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFb0034B07 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001151629.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:2030   CUGCUAUGCAAGCAGUCCUUCUGU   2053 Target Full Sequence	0.0	Zea mays uncharacterized LOC100278316 (si946092e03), mRNA	NA	coding protein	psRNATarget
EU972964.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*|||||||||||||||||||| targets:2030   CUGCUAUGCAAGCAGUCCUUCUGU   2053 Target Full Sequence	0.0	Zea mays clone 390894 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
JB163464.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||=||||||||||||||| targets:5   CUGCUAUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	1.0	Sequence 1128 from Patent EP2559767	NA	coding protein	psRNATarget
HI403003.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||=||||||||||||||| targets:5   CUGCUAUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	1.0	Sequence 1128 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235133.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||=||||||||||||||| targets:5   CUGCUAUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	1.0	Sequence 1128 from Patent EP2985353	NA	coding protein	psRNATarget
JB163400.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |*|||=||=||||||||||||||| targets:5   CGGUUGUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	2.0	Sequence 1064 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235069.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |*|||=||=||||||||||||||| targets:5   CGGUUGUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	2.0	Sequence 1064 from Patent EP2985353	NA	coding protein	psRNATarget
HI402939.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |*|||=||=||||||||||||||| targets:5   CGGUUGUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	2.0	Sequence 1064 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235247.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |*|||=||=||||||||||||||| targets:5   CGGUUGUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	2.0	Sequence 1242 from Patent EP2985353	NA	coding protein	psRNATarget
JB163578.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |*|||=||=||||||||||||||| targets:5   CGGUUGUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	2.0	Sequence 1242 from Patent EP2559767	NA	coding protein	psRNATarget
HI403117.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |*|||=||=||||||||||||||| targets:5   CGGUUGUGUAAGCAGUCCUUCUGU   28 Target Full Sequence	2.0	Sequence 1242 from Patent EP2074227	NA	coding protein	psRNATarget
XM_008683201.2	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||||||||||||||||*| targets:1456   CUGCUAUGCAAGCAGUCCUUCUUU   1479 Target Full Sequence	1.5	PREDICTED: Zea mays RNA 2'-phosphotransferase Tpt1 / KptA family (LOC100273223), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020553158.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||||||||||||||||*| targets:1458   CUGCUAUGCAAGCAGUCCUUCUUU   1481 Target Full Sequence	1.5	PREDICTED: Zea mays RNA 2'-phosphotransferase Tpt1 / KptA family (LOC100273223), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_020553156.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||||||||||||||||*| targets:1652   CUGCUAUGCAAGCAGUCCUUCUUU   1675 Target Full Sequence	1.5	PREDICTED: Zea mays RNA 2'-phosphotransferase Tpt1 / KptA family (LOC100273223), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020553154.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||||||||||||||||*| targets:1655   CUGCUAUGCAAGCAGUCCUUCUUU   1678 Target Full Sequence	1.5	PREDICTED: Zea mays RNA 2'-phosphotransferase Tpt1 / KptA family (LOC100273223), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020553155.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   |||*||||||||||||||||||*| targets:1659   CUGCUAUGCAAGCAGUCCUUCUUU   1682 Target Full Sequence	1.5	PREDICTED: Zea mays RNA 2'-phosphotransferase Tpt1 / KptA family (LOC100273223), transcript variant X2, mRNA	NA	coding protein	psRNATarget
LQ235511.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||| targets:1   UAUGCAAGCAGUCCUUCUGU   20 Target Full Sequence	0.0	Sequence 1506 from Patent EP2985353	NA	coding protein	psRNATarget
JB163842.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||| targets:1   UAUGCAAGCAGUCCUUCUGU   20 Target Full Sequence	0.0	Sequence 1506 from Patent EP2559767	NA	coding protein	psRNATarget
HI403381.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||| targets:1   UAUGCAAGCAGUCCUUCUGU   20 Target Full Sequence	0.0	Sequence 1506 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235525.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||| targets:1   UAUGCAAGCAGUCCUUCUGU   20 Target Full Sequence	0.0	Sequence 1520 from Patent EP2985353	NA	coding protein	psRNATarget
JB163856.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||| targets:1   UAUGCAAGCAGUCCUUCUGU   20 Target Full Sequence	0.0	Sequence 1520 from Patent EP2559767	NA	coding protein	psRNATarget
HI403395.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||||||||| targets:1   UAUGCAAGCAGUCCUUCUGU   20 Target Full Sequence	0.0	Sequence 1520 from Patent EP2074227	NA	coding protein	psRNATarget
XM_008679933.2	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   ||**||||||||||||=||||||| targets:1624   CUACUAUGCAAGCAGUUCUUCUGU   1647 Target Full Sequence	1.5	PREDICTED: Zea mays long chain base biosynthesis protein 2a (LOC103652945), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020548736.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   *||||||*||||||||*||||||| targets:1650   AUGUUAUACAAGCAGUGCUUCUGU   1673 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103648255 (LOC103648255), mRNA	NA	coding protein	psRNATarget
HI403344.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||*|||||||||||| targets:1   UAUGCAACCAGUCCUUCUGU   20 Target Full Sequence	1.5	Sequence 1469 from Patent EP2074227	NA	coding protein	psRNATarget
JB163805.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||*|||||||||||| targets:1   UAUGCAACCAGUCCUUCUGU   20 Target Full Sequence	1.5	Sequence 1469 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235474.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||*|||||||||||| targets:1   UAUGCAACCAGUCCUUCUGU   20 Target Full Sequence	1.5	Sequence 1469 from Patent EP2985353	NA	coding protein	psRNATarget
EU952411.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   ||||*=|**||||||||||||||| targets:534   CUGUGGUCAAAGCAGUCCUUCUGU   557 Target Full Sequence	3.0	Zea mays clone 1279919 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001149038.1	ncRNA:24   GACAAUACGUUCGUCAGGAAGACA   1   ||||*=|**||||||||||||||| targets:534   CUGUGGUCAAAGCAGUCCUUCUGU   557 Target Full Sequence	3.0	Zea mays putative protein phosphatase 2C 40 (LOC100274745), transcript variant 2, mRNA	NA	coding protein	psRNATarget
HI403317.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   ||||=||*|||||||||||| targets:1   UAUGUAAACAGUCCUUCUGU   20 Target Full Sequence	2.5	Sequence 1442 from Patent EP2074227	NA	coding protein	psRNATarget
JB163778.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   ||||=||*|||||||||||| targets:1   UAUGUAAACAGUCCUUCUGU   20 Target Full Sequence	2.5	Sequence 1442 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235447.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   ||||=||*|||||||||||| targets:1   UAUGUAAACAGUCCUUCUGU   20 Target Full Sequence	2.5	Sequence 1442 from Patent EP2985353	NA	coding protein	psRNATarget
JB163917.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||*|||||* targets:1   UAUGCAAGCAGUCAUUCUGG   20 Target Full Sequence	2.5	Sequence 1581 from Patent EP2559767	NA	coding protein	psRNATarget
HI403456.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||*|||||* targets:1   UAUGCAAGCAGUCAUUCUGG   20 Target Full Sequence	2.5	Sequence 1581 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235586.1	ncRNA:20   AUACGUUCGUCAGGAAGACA   1   |||||||||||||*|||||* targets:1   UAUGCAAGCAGUCAUUCUGG   20 Target Full Sequence	2.5	Sequence 1581 from Patent EP2985353	NA	coding protein	psRNATarget