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BaseInfo

ncRNA ID	novel_zma_miR4466
Species	Zea mays
Class	miRNA
Genome position	Chr9:12080486-12080622 [+]
Reference genome	RefGen_v4
Source	SRR2287161
Length	24
Mature sequence(if miRNA)	114 - AUACUAGAGUACCUAAACAAAGUC - 137
Stem-loop(if miRNA)	--UCUA                                U   A                     -  UA       GUUUGGGUACUCUAGUAUUAAUCUCAAUUCAU UGU UUGAGGUGGAUUGUGGUGUAA CU  A       |||||||||||||||||||||||||||||||| ||| ||||||||||||||||||||| ||       CAAAUCCAUGAGAUCAUAAUUGGGGUUAGGUA ACA AACUCCACCUAAUACCACAUU GA  A CUGAAA                                U   C                     U  UC
Stem-loop sequence	UCUAGUUUGGGUACUCUAGUAUUAAUCUCAAUUCAUUUGUAUUGAGGUGGAUUGUGGUGUAACUUAAACUAGUUUACACCAUAAUCCACCUCAACACAUAUGGAUUGGGGUUAAUACUAGAGUACCUAAACAAAGUC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
EZ102361.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||||||||| targets:95   GGCUUUGUUUGGGUACUCUAGUAU   118 Target Full Sequence	1.0	TSA: Zea mays contig38017, mRNA sequence	NA	coding protein	psRNATarget
BT038657.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||||||||| targets:1695   GGCUUUGUUUGGGUACUCUAGUAU   1718 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0304H12 mRNA, complete cds	NA	coding protein	psRNATarget
BT037441.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||||||||| targets:1757   GGCUUUGUUUGGGUACUCUAGUAU   1780 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0169H11 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001143237.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||||||||| targets:1757   GGCUUUGUUUGGGUACUCUAGUAU   1780 Target Full Sequence	1.0	Zea mays Ferrochelatase (pco095974), mRNA	NA	coding protein	psRNATarget
XM_008669126.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||||||||| targets:1796   GGCUUUGUUUGGGUACUCUAGUAU   1819 Target Full Sequence	1.0	PREDICTED: Zea mays Ferrochelatase (pco095974), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ056756.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:183   GGUUUUGUUUGGGUACUCUAGUAU   206 Target Full Sequence	1.0	TSA: Zea mays contig57878, mRNA sequence	NA	coding protein	psRNATarget
LQ238785.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||=|||||| targets:12   GGCUUUGUUUGGGUACUUUAGUAU   35 Target Full Sequence	2.5	Sequence 4780 from Patent EP2985353	NA	coding protein	psRNATarget
JB167116.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||=|||||| targets:12   GGCUUUGUUUGGGUACUUUAGUAU   35 Target Full Sequence	2.5	Sequence 4780 from Patent EP2559767	NA	coding protein	psRNATarget
HI406655.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=||||||=|||||| targets:12   GGCUUUGUUUGGGUACUUUAGUAU   35 Target Full Sequence	2.5	Sequence 4780 from Patent EP2074227	NA	coding protein	psRNATarget
BT069728.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:288   GGUUUUGUUUGGGUACUCUAGUAU   311 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0212B11 mRNA, complete cds	NA	coding protein	psRNATarget
EU949321.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:455   GGUUUUGUUUGGGUACUCUAGUAU   478 Target Full Sequence	1.0	Zea mays clone 401072 mRNA sequence	NA	coding protein	psRNATarget
AY104367.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=|||=||||||||| targets:527   GGCUUUGUUUGGGUGCUCUAGUAU   550 Target Full Sequence	2.5	Zea mays PCO134486 mRNA sequence	NA	coding protein	psRNATarget
NM_001291617.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=|||=||||||||| targets:594   GGCUUUGUUUGGGUGCUCUAGUAU   617 Target Full Sequence	2.5	Zea mays enhancer of rudimentary-like protein (LOC100383755), mRNA	NA	coding protein	psRNATarget
BT068211.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=|||=||||||||| targets:594   GGCUUUGUUUGGGUGCUCUAGUAU   617 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0077D08 mRNA, complete cds	NA	coding protein	psRNATarget
EU328276.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:873   GGUUUUGUUUGGGUACUCUAGUAU   896 Target Full Sequence	1.0	Zea mays RFLP probe p-csu389 mRNA sequence	NA	coding protein	psRNATarget
EU963259.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=|||=||||||||| targets:837   GGCUUUGUUUGGGUGCUCUAGUAU   860 Target Full Sequence	2.5	Zea mays clone 259966 enhancer of rudimentary mRNA, complete cds	NA	coding protein	psRNATarget
AY107149.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:1231   GGUUUUGUUUGGGUACUCUAGUAU   1254 Target Full Sequence	1.0	Zea mays PCO139446 mRNA sequence	NA	coding protein	psRNATarget
BT062480.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:1403   GGUUUUGUUUGGGUACUCUAGUAU   1426 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0303E20 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001174655.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:1403   GGUUUUGUUUGGGUACUCUAGUAU   1426 Target Full Sequence	1.0	Zea mays Putative SAP DNA-binding domain family protein isoform 1 (LOC100381870), mRNA	NA	coding protein	psRNATarget
XM_008660566.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:2637   GGUUUUGUUUGGGUACUCUAGUAU   2660 Target Full Sequence	1.0	PREDICTED: Zea mays Putative SAP DNA-binding domain family protein isoform 1 (LOC100381870), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008660567.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:2668   GGUUUUGUUUGGGUACUCUAGUAU   2691 Target Full Sequence	1.0	PREDICTED: Zea mays Putative SAP DNA-binding domain family protein isoform 1 (LOC100381870), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008660568.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||||||||| targets:2696   GGUUUUGUUUGGGUACUCUAGUAU   2719 Target Full Sequence	1.0	PREDICTED: Zea mays Putative SAP DNA-binding domain family protein isoform 1 (LOC100381870), transcript variant X3, mRNA	NA	coding protein	psRNATarget
EZ108049.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||*||||||||||||| targets:185   GGCUUUGUUUCGGUACUCUAGUAU   208 Target Full Sequence	1.0	TSA: Zea mays contig43707, mRNA sequence	NA	coding protein	psRNATarget
EZ109625.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   ||||||||||=|||||||||*||| targets:466   GACUUUGUUUGGGUACUCUAAUAU   489 Target Full Sequence	2.5	TSA: Zea mays contig45284, mRNA sequence	NA	coding protein	psRNATarget
NM_001175915.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||*||||||||||||| targets:792   GGCUUUGUUUCGGUACUCUAGUAU   815 Target Full Sequence	1.0	Zea mays U2 small nuclear ribonucleoprotein B'' (LOC100383254), mRNA	NA	coding protein	psRNATarget
BT066687.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||*||||||||||||| targets:792   GGCUUUGUUUCGGUACUCUAGUAU   815 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0047M01 mRNA, complete cds	NA	coding protein	psRNATarget
EU962825.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||*||||||||||||| targets:876   GGCUUUGUUUCGGUACUCUAGUAU   899 Target Full Sequence	1.0	Zea mays clone 245793 mRNA sequence	NA	coding protein	psRNATarget
EU963469.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   ||||||||||=||||||||*|||| targets:949   GACUUUGUUUGGGUACUCUUGUAU   972 Target Full Sequence	2.5	Zea mays clone 263014 mRNA sequence	NA	coding protein	psRNATarget
AY103846.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||*||||||||||||| targets:896   GGCUUUGUUUCGGUACUCUAGUAU   919 Target Full Sequence	1.0	Zea mays PCO130752 mRNA sequence	NA	coding protein	psRNATarget
EZ080094.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=*|||||||||||| targets:178   GGCUUUGUUUGAGUACUCUAGUAU   201 Target Full Sequence	2.5	TSA: Zea mays contig15733, mRNA sequence	NA	coding protein	psRNATarget
EU961632.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=||||||||=*|||||||||||| targets:1729   GGCUUUGUUUGAGUACUCUAGUAU   1752 Target Full Sequence	2.5	Zea mays clone 237175 ferrochelatase-2 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008646893.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   ||=|||||||=|*||||||||||| targets:3110   GAUUUUGUUUGGAUACUCUAGUAU   3133 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103626481 (LOC103626481), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008646891.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   ||=|||||||=|*||||||||||| targets:3196   GAUUUUGUUUGGAUACUCUAGUAU   3219 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103626481 (LOC103626481), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008646892.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   ||=|||||||=|*||||||||||| targets:3291   GAUUUUGUUUGGAUACUCUAGUAU   3314 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103626481 (LOC103626481), transcript variant X2, mRNA	NA	coding protein	psRNATarget
HI403492.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   =|||||||=||||||||||||| targets:1   UUUUGUUUGGGUACUCUAGUAU   22 Target Full Sequence	1.0	Sequence 1617 from Patent EP2074227	NA	coding protein	psRNATarget
JB163953.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   =|||||||=||||||||||||| targets:1   UUUUGUUUGGGUACUCUAGUAU   22 Target Full Sequence	1.0	Sequence 1617 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235622.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   =|||||||=||||||||||||| targets:1   UUUUGUUUGGGUACUCUAGUAU   22 Target Full Sequence	1.0	Sequence 1617 from Patent EP2985353	NA	coding protein	psRNATarget
BT070204.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==|||||||=||||||*|||||| targets:896   GGUUUUGUUUGGGUACUAUAGUAU   919 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0171F04 mRNA, complete cds	NA	coding protein	psRNATarget
EZ063549.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |||*|*||||=||||||||||||| targets:71   GACCUAGUUUGGGUACUCUAGUAU   94 Target Full Sequence	2.0	TSA: Zea mays contig64671, mRNA sequence	NA	coding protein	psRNATarget
LQ235446.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   ||||||||=*|||||||||||| targets:1   CUUUGUUUGAGUACUCUAGUAU   22 Target Full Sequence	2.5	Sequence 1441 from Patent EP2985353	NA	coding protein	psRNATarget
HI403316.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   ||||||||=*|||||||||||| targets:1   CUUUGUUUGAGUACUCUAGUAU   22 Target Full Sequence	2.5	Sequence 1441 from Patent EP2074227	NA	coding protein	psRNATarget
JB163777.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   ||||||||=*|||||||||||| targets:1   CUUUGUUUGAGUACUCUAGUAU   22 Target Full Sequence	2.5	Sequence 1441 from Patent EP2559767	NA	coding protein	psRNATarget
LQ239362.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   ||||||||=||||||||*|||| targets:1   CUUUGUUUGGGUACUCUUGUAU   22 Target Full Sequence	2.5	Sequence 5357 from Patent EP2985353	NA	coding protein	psRNATarget
HI407232.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   ||||||||=||||||||*|||| targets:1   CUUUGUUUGGGUACUCUUGUAU   22 Target Full Sequence	2.5	Sequence 5357 from Patent EP2074227	NA	coding protein	psRNATarget
JB167693.1	ncRNA:22   GAAACAAAUCCAUGAGAUCAUA   1   ||||||||=||||||||*|||| targets:1   CUUUGUUUGGGUACUCUUGUAU   22 Target Full Sequence	2.5	Sequence 5357 from Patent EP2559767	NA	coding protein	psRNATarget
BT061138.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   *=||||*||||||||*|||||||| targets:1339   AGCUUUAUUUAGGUAAUCUAGUAU   1362 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0114I20 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008652701.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   *=||||*||||||||*|||||||| targets:1357   AGCUUUAUUUAGGUAAUCUAGUAU   1380 Target Full Sequence	2.5	PREDICTED: Zea mays NAD(P)-binding Rossmann-fold superfamily protein (gpm248), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008652700.2	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   *=||||*||||||||*|||||||| targets:1387   AGCUUUAUUUAGGUAAUCUAGUAU   1410 Target Full Sequence	2.5	PREDICTED: Zea mays NAD(P)-binding Rossmann-fold superfamily protein (gpm248), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU968340.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==*|*||||=||||||||||||| targets:627   GGUCUAGUUUGGGUACUCUAGUAU   650 Target Full Sequence	2.0	Zea mays clone 319179 mRNA sequence	NA	coding protein	psRNATarget
EU950672.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   *=|*||||||=*|||||||||||| targets:1007   AGCCUUGUUUGAGUACUCUAGUAU   1030 Target Full Sequence	2.5	Zea mays clone 508256 mRNA sequence	NA	coding protein	psRNATarget
XM_020539168.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   *=|*||||||=*|||||||||||| targets:1304   AGCCUUGUUUGAGUACUCUAGUAU   1327 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC107275233 (LOC107275233), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU950079.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |=|*|*||||=||||||||||||* targets:1541   GGCCUAGUUUGGGUACUCUAGUAA   1564 Target Full Sequence	3.0	Zea mays clone 460377 mRNA sequence	NA	coding protein	psRNATarget
EU946584.1	ncRNA:24   CUGAAACAAAUCCAUGAGAUCAUA   1   |==*|*||||=||||||||||||* targets:436   GGUCUAGUUUGGGUACUCUAGUAA   459 Target Full Sequence	3.0	Zea mays clone 317794 mRNA sequence	NA	coding protein	psRNATarget