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BaseInfo

ncRNA ID	novel_zma_miR3080
Species	Zea mays
Class	miRNA
Genome position	Chr9:122425036-122425187 [+]
Reference genome	RefGen_v4
Source	SRR2089714;SRR2089707
Length	24
Mature sequence(if miRNA)	1 - CAGCUUAGGGCUUGUUCGGUUAUU - 24
Stem-loop(if miRNA)	-CA   U                -   C   AA  CA       GA          AAA   UGAGAAGAUGUUUGA    GCU AGGGCUUGUUCGGUUA UUC CAA  CA  UGGAUUG  UGGGAUUGGA   AAA               C    ||| |||||||||||||||| ||| |||  ||  |||||||  ||||||||||   |||    UGA UCCCGAACAAGCCAAU GAG GUU  GU  ACCUAAC  ACCCUAACCU   CUC               U GGG   U                C   A   AG  AC       UC          --A   AAACUUAGGGUUUAU
Stem-loop sequence	CAGCUUAGGGCUUGUUCGGUUAUUCCCAAAACACAUGGAUUGGAUGGGAUUGGAAAAAAAUGAGAAGAUGUUUGACUUAUUUGGGAUUCAAACUCAUCCAAUCCCACUCAAUCCACAUGGAUUGAGAGCUAACCGAACAAGCCCUUAGUGGG

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
EU957313.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   |||||||||||||||||||||||| targets:766   AAUAACCGAACAAGCCCUAAGCUG   789 Target Full Sequence	0.0	Zea mays clone 1588341 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001149687.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   |||||||||||||||||||||||| targets:766   AAUAACCGAACAAGCCCUAAGCUG   789 Target Full Sequence	0.0	Zea mays uncharacterized LOC100275644 (LOC100275644), mRNA	NA	coding protein	psRNATarget
EU960091.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   |||||||||||||||||||||||| targets:1196   AAUAACCGAACAAGCCCUAAGCUG   1219 Target Full Sequence	0.0	Zea mays clone 221636 mRNA sequence	NA	coding protein	psRNATarget
BT083591.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   |||||||||||||||||||||=|* targets:1212   AAUAACCGAACAAGCCCUAAGUUU   1235 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0016I19 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001158639.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   |||||||||||||||||||||=|* targets:1316   AAUAACCGAACAAGCCCUAAGUUU   1339 Target Full Sequence	2.5	Zea mays coiled-coil-helix-coiled-coil-helix domain-containing protein 4 (LOC100285749), mRNA	NA	coding protein	psRNATarget
EU973712.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   |||||||||||||||||||||=|* targets:1316   AAUAACCGAACAAGCCCUAAGUUU   1339 Target Full Sequence	2.5	Zea mays clone 407236 coiled-coil-helix-coiled-coil-helix domain-containing protein 4 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020537891.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||=||||||||||||||||| targets:3022   GCUAACUGAACAAGCCCUAAGCUG   3045 Target Full Sequence	1.0	PREDICTED: Zea mays probable serine/threonine protein kinase IREH1 (LOC103625948), transcript variant X2, mRNA	NA	coding protein	psRNATarget
BT086633.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUU-CGAC   1   =*||||||||||||||||||-|||| targets:488   GCUAACCGAACAAGCCCUAACGCUG   512 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFa0068P14 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001153140.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   *=|||||||||||||||||||*|| targets:1640   UGUAACCGAACAAGCCCUAAGAUG   1663 Target Full Sequence	1.5	Zea mays uncharacterized LOC100280209 (LOC100280209), mRNA	NA	coding protein	psRNATarget
BT055781.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   *=|||||||||||||||||||*|| targets:1640   UGUAACCGAACAAGCCCUAAGAUG   1663 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0185O06 mRNA, complete cds	NA	coding protein	psRNATarget
BT061569.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   *=|||||||||||||||||||*|| targets:1829   UGUAACCGAACAAGCCCUAAGAUG   1852 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0159M03 mRNA, complete cds	NA	coding protein	psRNATarget
BT063416.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUU-CGAC   1   =*||||||||||||||||||-|||| targets:2113   GCUAACCGAACAAGCCCUAACGCUG   2137 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFc0061L20 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001154362.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUU-CGAC   1   =*||||||||||||||||||-|||| targets:2185   GCUAACCGAACAAGCCCUAACGCUG   2209 Target Full Sequence	3.0	Zea mays protein kinase domain containing protein (LOC100281444), mRNA	NA	coding protein	psRNATarget
EU956718.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUU-CGAC   1   =*||||||||||||||||||-|||| targets:2186   GCUAACCGAACAAGCCCUAACGCUG   2210 Target Full Sequence	3.0	Zea mays clone 1571610 protein kinase domain containing protein mRNA, complete cds	NA	coding protein	psRNATarget
XM_008674604.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUU-CGAC   1   =*||||||||||||||||||-|||| targets:2314   GCUAACCGAACAAGCCCUAACGCUG   2338 Target Full Sequence	3.0	PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020549704.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUU-CGAC   1   =*||||||||||||||||||-|||| targets:2321   GCUAACCGAACAAGCCCUAACGCUG   2345 Target Full Sequence	3.0	PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020549703.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUU-CGAC   1   =*||||||||||||||||||-|||| targets:2381   GCUAACCGAACAAGCCCUAACGCUG   2405 Target Full Sequence	3.0	PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008661803.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   *=||||||||||||*||||||||| targets:1403   UGUAACCGAACAAGGCCUAAGCUG   1426 Target Full Sequence	1.5	PREDICTED: Zea mays protein WEAK CHLOROPLAST MOVEMENT UNDER BLUE LIGHT 1 (LOC103639026), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT017369.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   |||||*|||||||||||||||*|| targets:229   AAUAAACGAACAAGCCCUAAGGUG   252 Target Full Sequence	2.5	Zea mays clone EL01N0324H03.c mRNA sequence	NA	coding protein	psRNATarget
EU942673.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:124   GCUAACCGAACAAGCCCUAAACUG   147 Target Full Sequence	1.5	Zea mays clone 1529344 mRNA sequence	NA	coding protein	psRNATarget
NM_001147844.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:1157   GCUAACCGAACAAGCCCUAAACUG   1180 Target Full Sequence	1.5	Zea mays Phytanoyl-CoA dioxygenase (LOC100273407), mRNA	NA	coding protein	psRNATarget
BT041052.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:1157   GCUAACCGAACAAGCCCUAAACUG   1180 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0169K03 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001176594.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:1161   GCUAACCGAACAAGCCCUAAACUG   1184 Target Full Sequence	1.5	Zea mays uncharacterized LOC100383981 (LOC100383981), mRNA	NA	coding protein	psRNATarget
BT068797.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:1161   GCUAACCGAACAAGCCCUAAACUG   1184 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0382L20 mRNA, complete cds	NA	coding protein	psRNATarget
BT066987.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:1448   GCUAACCGAACAAGCCCUAAACUG   1471 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0138F03 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001279968.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*|||||||||||||||||||*|| targets:1563   GCUAACCGAACAAGCCCUAAGGUG   1586 Target Full Sequence	1.5	Zea mays putative methyltransferase PMT15 (LOC101027245), mRNA	NA	coding protein	psRNATarget
BT088232.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*|||||||||||||||||||*|| targets:1563   GCUAACCGAACAAGCCCUAAGGUG   1586 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0086F14 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008645912.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:1652   GCUAACCGAACAAGCCCUAAACUG   1675 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100383981 (LOC100383981), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008679547.2	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*|||||||||||||||||||*|| targets:2533   GCUAACCGAACAAGCCCUAAGGUG   2556 Target Full Sequence	1.5	PREDICTED: Zea mays putative methyltransferase PMT15 (LOC101027245), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020539703.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   =*||||||||||||||||||*||| targets:93   GCUAACCGAACAAGCCCUAAUCUG   116 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC109940256 (LOC109940256), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020542682.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   *|*|||||||||||||||*||||| targets:906   UACAACCGAACAAGCCCUUAGCUG   929 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC109939377 (LOC109939377), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020542681.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   *|*|||||||||||||||*||||| targets:1001   UACAACCGAACAAGCCCUUAGCUG   1024 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC109939377 (LOC109939377), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT054737.1	ncRNA:24   UUAUUGGCUUGUUCGGGAUUCGAC   1   ***||||||||||||||||||*|| targets:217   UCAAACCGAACAAGCCCUAAGGUG   240 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0011M02 mRNA, complete cds	NA	coding protein	psRNATarget