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BaseInfo

ncRNA ID	novel_zma_miR3796
Species	Zea mays
Class	miRNA
Genome position	Chr4:235562670-235562822 [-]
Reference genome	RefGen_v4
Source	SRR2287031;SRR2287164;SRR5451005
Length	24
Mature sequence(if miRNA)	130 - ACACUUAGGGCUUGUUCGGUUAUU - 153
Stem-loop(if miRNA)	--ACA  U                 - UU                G     AUUGAUACG           A   UG -   A      CU AGGGCUUGUUCGGUUAU U  CAAUCCAUAUGGAUUG AGGGG         GAUUGGAGGGG UUU  A CUU C      || ||||||||||||||||| |  |||||||||||||||| |||||         ||||||||||| |||  | |||      GA UUCCGAACAAGCCAAUA G  GUUAGGUAUACCUAAC UCCCC         CUAACUUCCCC AAA  U GGG U UUGGG  U                 U GG                -     ---------           -   GU A   A
Stem-loop sequence	ACACUUAGGGCUUGUUCGGUUAUUUUCAAUCCAUAUGGAUUGGAGGGGAUUGAUACGGAUUGGAGGGGAUUUUGACUUACUAGGGAUUGAAACCCCUUCAAUCCCCCUCAAUCCAUAUGGAUUGGGGUAUAACCGAACAAGCCUUUAGGGGUU

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
EU968099.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||| targets:255   AAUAACCGAACAAGCCCUAAGUGU   278 Target Full Sequence	0.0	Zea mays clone 314232 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
XM_020548987.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:2009   AAUAACCGAACAAGCCCUAAGUGG   2032 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC103648913 (LOC103648913), mRNA	NA	coding protein	psRNATarget
XM_008673290.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:2009   AAUAACCGAACAAGCCCUAAGUGG   2032 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC103648912 (LOC103648912), mRNA	NA	coding protein	psRNATarget
XM_020550022.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:3716   AAUAACCGAACAAGCCCUAAGUGG   3739 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X8, mRNA	NA	coding protein	psRNATarget
XM_020550024.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:3740   AAUAACCGAACAAGCCCUAAGUGG   3763 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X10, mRNA	NA	coding protein	psRNATarget
XM_020550021.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:3794   AAUAACCGAACAAGCCCUAAGUGG   3817 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X7, mRNA	NA	coding protein	psRNATarget
XM_020550020.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:3788   AAUAACCGAACAAGCCCUAAGUGG   3811 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X6, mRNA	NA	coding protein	psRNATarget
XM_020550017.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:3796   AAUAACCGAACAAGCCCUAAGUGG   3819 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020550019.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:3783   AAUAACCGAACAAGCCCUAAGUGG   3806 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_020550016.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:3858   AAUAACCGAACAAGCCCUAAGUGG   3881 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020550018.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:4182   AAUAACCGAACAAGCCCUAAGUGG   4205 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020550015.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||||* targets:4278   AAUAACCGAACAAGCCCUAAGUGG   4301 Target Full Sequence	1.0	PREDICTED: Zea mays serine/threonine-protein kinase prpf4B-like (LOC103650321), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU960091.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUC-ACA   1   |||||||||||||||||||||-||| targets:1196   AAUAACCGAACAAGCCCUAAGCUGU   1220 Target Full Sequence	3.0	Zea mays clone 221636 mRNA sequence	NA	coding protein	psRNATarget
BT083591.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||||*| targets:1212   AAUAACCGAACAAGCCCUAAGUUU   1235 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0016I19 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001158639.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||||*| targets:1316   AAUAACCGAACAAGCCCUAAGUUU   1339 Target Full Sequence	1.5	Zea mays coiled-coil-helix-coiled-coil-helix domain-containing protein 4 (LOC100285749), mRNA	NA	coding protein	psRNATarget
EU973712.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||||*| targets:1316   AAUAACCGAACAAGCCCUAAGUUU   1339 Target Full Sequence	1.5	Zea mays clone 407236 coiled-coil-helix-coiled-coil-helix domain-containing protein 4 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020548080.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||||** targets:1076   AAUAACCGAACAAGCCCUAAGUCG   1099 Target Full Sequence	2.5	PREDICTED: Zea mays translation initiation factor IF-2-like (LOC109943947), mRNA	NA	coding protein	psRNATarget
BT055467.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||||** targets:1114   AAUAACCGAACAAGCCCUAAGUCG   1137 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0279E03 mRNA, complete cds	NA	coding protein	psRNATarget
EZ113075.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||=|||||||||||*||||| targets:15   AAUAACUGAACAAGCCCUUAGUGU   38 Target Full Sequence	2.5	TSA: Zea mays contig48736, mRNA sequence	NA	coding protein	psRNATarget
EU941886.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||*||||* targets:181   AAUAACCGAACAAGCCCUUAGUGG   204 Target Full Sequence	2.5	Zea mays clone 1471521 mRNA sequence	NA	coding protein	psRNATarget
NM_001138477.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||*||||* targets:1279   AAUAACCGAACAAGCCCUUAGUGG   1302 Target Full Sequence	2.5	Zea mays Transmembrane 9 superfamily member 9 (LOC100193342), mRNA	NA	coding protein	psRNATarget
BT035580.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||*||||* targets:1279   AAUAACCGAACAAGCCCUUAGUGG   1302 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0070I12 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001174684.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||*||||* targets:1321   AAUAACCGAACAAGCCCUUAGUGG   1344 Target Full Sequence	2.5	Zea mays Elongation factor G-1 mitochondrial (pco134899), mRNA	NA	coding protein	psRNATarget
BT062563.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||*||||* targets:1321   AAUAACCGAACAAGCCCUUAGUGG   1344 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0314E20 mRNA, complete cds	NA	coding protein	psRNATarget
BT064472.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||*|* targets:1450   AAUAACCGAACAAGCCCUAAGGGG   1473 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0172D22 mRNA, complete cds	NA	coding protein	psRNATarget
BT040193.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||*|* targets:1494   AAUAACCGAACAAGCCCUAAGGGG   1517 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0070L08 mRNA, complete cds	NA	coding protein	psRNATarget
AY105910.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||*|* targets:1512   AAUAACCGAACAAGCCCUAAGGGG   1535 Target Full Sequence	2.5	Zea mays PCO106969 mRNA sequence	NA	coding protein	psRNATarget
NM_001148011.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||*|* targets:1526   AAUAACCGAACAAGCCCUAAGGGG   1549 Target Full Sequence	2.5	Zea mays uncharacterized LOC100273594 (AY105910), mRNA	NA	coding protein	psRNATarget
BT041454.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||||||||||||||||*|* targets:1526   AAUAACCGAACAAGCCCUAAGGGG   1549 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0061I22 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008668946.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||*||||* targets:2391   AAUAACCGAACAAGCCCUUAGUGG   2414 Target Full Sequence	2.5	PREDICTED: Zea mays Transmembrane 9 superfamily member 9 (LOC100193342), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008645434.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||*||||* targets:2564   AAUAACCGAACAAGCCCUUAGUGG   2587 Target Full Sequence	2.5	PREDICTED: Zea mays Elongation factor G-1 mitochondrial (pco134899), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020543938.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||*||* targets:318   AAUAACCGAACAAGCCCUAACUGA   341 Target Full Sequence	2.5	PREDICTED: Zea mays pentatricopeptide repeat-containing protein At5g39710 (LOC103638071), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_020543937.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||*||* targets:318   AAUAACCGAACAAGCCCUAACUGA   341 Target Full Sequence	2.5	PREDICTED: Zea mays pentatricopeptide repeat-containing protein At5g39710 (LOC103638071), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020543936.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||*||* targets:318   AAUAACCGAACAAGCCCUAACUGA   341 Target Full Sequence	2.5	PREDICTED: Zea mays pentatricopeptide repeat-containing protein At5g39710 (LOC103638071), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020543935.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   ||||||||||||||||||||*||* targets:318   AAUAACCGAACAAGCCCUAACUGA   341 Target Full Sequence	2.5	PREDICTED: Zea mays pentatricopeptide repeat-containing protein At5g39710 (LOC103638071), transcript variant X2, mRNA	NA	coding protein	psRNATarget
BT018903.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   =*|||||||||||||||||||||* targets:2062   GCUAACCGAACAAGCCCUAAGUGG   2085 Target Full Sequence	1.0	Zea mays clone EL01T0208C03.d mRNA sequence	NA	coding protein	psRNATarget
DQ246154.1	ncRNA:24   UUA-------UUGGCUUGUUCGGGAUUCACA   1   |||-------|||||||||=||||||||||| targets:602   AAUCCACUAGAACCGAACAGGCCCUAAGUGU   632 Target Full Sequence	1.5	Zea mays clone 6992 mRNA sequence	NA	coding protein	psRNATarget
NM_001279968.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUC-ACA   1   =*|||||||||||||||||||-||| targets:1563   GCUAACCGAACAAGCCCUAAGGUGU   1587 Target Full Sequence	3.0	Zea mays putative methyltransferase PMT15 (LOC101027245), mRNA	NA	coding protein	psRNATarget
BT088232.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUC-ACA   1   =*|||||||||||||||||||-||| targets:1563   GCUAACCGAACAAGCCCUAAGGUGU   1587 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFc0086F14 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008679547.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUC-ACA   1   =*|||||||||||||||||||-||| targets:2533   GCUAACCGAACAAGCCCUAAGGUGU   2557 Target Full Sequence	3.0	PREDICTED: Zea mays putative methyltransferase PMT15 (LOC101027245), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020538542.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |||||||*||||||||||*||||| targets:90   AAUAACCAAACAAGCCCUUAGUGU   113 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103628650 (LOC103628650), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020549820.1	ncRNA:24   UUA-------UUGGCUUGUUCGGGAUUCACA   1   |||-------|||||||||||||||=||||* targets:4499   AAUCCCUGUGAACCGAACAAGCCCUGAGUGG   4529 Target Full Sequence	2.5	PREDICTED: Zea mays Acetamidase/Formamidase family protein (LOC100381446), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_008674837.2	ncRNA:24   UUA-------UUGGCUUGUUCGGGAUUCACA   1   |||-------|||||||||||||||=||||* targets:4505   AAUCCCUGUGAACCGAACAAGCCCUGAGUGG   4535 Target Full Sequence	2.5	PREDICTED: Zea mays Acetamidase/Formamidase family protein (LOC100381446), transcript variant X2, mRNA	NA	coding protein	psRNATarget
HI405944.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   *=|||||||||||||||||||*|* targets:117   CGUAACCGAACAAGCCCUAAGGGA   140 Target Full Sequence	2.5	Sequence 4069 from Patent EP2074227	NA	coding protein	psRNATarget
JB166408.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   *=|||||||||||||||||||*|* targets:117   CGUAACCGAACAAGCCCUAAGGGA   140 Target Full Sequence	2.5	Sequence 4072 from Patent EP2559767	NA	coding protein	psRNATarget
JB166405.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   *=|||||||||||||||||||*|* targets:117   CGUAACCGAACAAGCCCUAAGGGA   140 Target Full Sequence	2.5	Sequence 4069 from Patent EP2559767	NA	coding protein	psRNATarget
LQ238077.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   *=|||||||||||||||||||*|* targets:117   CGUAACCGAACAAGCCCUAAGGGA   140 Target Full Sequence	2.5	Sequence 4072 from Patent EP2985353	NA	coding protein	psRNATarget
HI405947.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   *=|||||||||||||||||||*|* targets:117   CGUAACCGAACAAGCCCUAAGGGA   140 Target Full Sequence	2.5	Sequence 4072 from Patent EP2074227	NA	coding protein	psRNATarget
LQ238074.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   *=|||||||||||||||||||*|* targets:117   CGUAACCGAACAAGCCCUAAGGGA   140 Target Full Sequence	2.5	Sequence 4069 from Patent EP2985353	NA	coding protein	psRNATarget
EU948993.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   *|*|||||||||||||||=||||* targets:625   UAGAACCGAACAAGCCCUGAGUGG   648 Target Full Sequence	2.5	Zea mays clone 393064 mRNA sequence	NA	coding protein	psRNATarget
JB163480.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   =*||||||||||||||||||*||* targets:131   GCUAACCGAACAAGCCCUAAUUGA   154 Target Full Sequence	2.5	Sequence 1144 from Patent EP2559767	NA	coding protein	psRNATarget
HI403019.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   =*||||||||||||||||||*||* targets:131   GCUAACCGAACAAGCCCUAAUUGA   154 Target Full Sequence	2.5	Sequence 1144 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235149.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   =*||||||||||||||||||*||* targets:131   GCUAACCGAACAAGCCCUAAUUGA   154 Target Full Sequence	2.5	Sequence 1144 from Patent EP2985353	NA	coding protein	psRNATarget
XM_008657579.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   =*||||||||||||||||||*||* targets:7178   GCUAACCGAACAAGCCCUAAUUGA   7201 Target Full Sequence	2.5	PREDICTED: Zea mays acyl-coenzyme A thioesterase 13 (LOC103635012), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008657578.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   =*||||||||||||||||||*||* targets:7282   GCUAACCGAACAAGCCCUAAUUGA   7305 Target Full Sequence	2.5	PREDICTED: Zea mays acyl-coenzyme A thioesterase 13 (LOC103635012), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020542399.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   =*||||||||||||||||||*||* targets:7293   GCUAACCGAACAAGCCCUAAUUGA   7316 Target Full Sequence	2.5	PREDICTED: Zea mays acyl-coenzyme A thioesterase 13 (LOC103635012), transcript variant X3, mRNA	NA	coding protein	psRNATarget
NM_001346844.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCACA   1   |**||||*||||=||||||||||| targets:1591   ACAAACCAAACAGGCCCUAAGUGU   1614 Target Full Sequence	2.5	Zea mays protein ASPARTIC PROTEASE IN GUARD CELL 2-like (LOC103636276), mRNA	NA	coding protein	psRNATarget