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BaseInfo

ncRNA ID	novel_zma_miR5548
Species	Zea mays
Class	miRNA
Genome position	Chr8:134766690-134766834 [+]
Reference genome	RefGen_v4
Source	SRR2638137;SRR2647221;SRR2647343;SRR2647385;SRR2647386;SRR2647387;SRR2647388;SRR2647389;SRR2647390;SRR2647391;SRR2647467;SRR1583943
Length	24
Mature sequence(if miRNA)	1 - UAAGGUCUUGUUCGGUUAUUCCCA - 24
Stem-loop(if miRNA)	--UA   U            -   C    A  CA       GA          AAAAA   UUAAGAAGUUUGA     AGG CUUGUUCGGUUA UUC CAAU CA  UGGAUUG  UGGGAUUGGA     UUC             C     ||| |||||||||||| ||| |||| ||  |||||||  ||||||||||     |||             U     UCC GAACAAGCCAAU GAG GUUA GU  ACCUAAC  ACCCUAACCU     ACA             U CGAA   C            C   A    G  AC       UC          ---AC   AACUUAGGGUUUG
Stem-loop sequence	UAAGGUCUUGUUCGGUUAUUCCCAAUACACAUGGAUUGGAUGGGAUUGGAAAAAAUUCUUAAGAAGUUUGACUUGUUUGGGAUUCAAACACAUCCAAUCCCACUCAAUCCACAUGGAUUGAGAGCUAACCGAACAAGCCCUAAGC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BT070056.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||||||||||||||||||||||| targets:867   UGGGAAUAACCGAACAAGACCUUA   890 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFb0374H10 mRNA, complete cds	NA	coding protein	psRNATarget
AY103687.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||||||||||||||||||||||| targets:1178   UGGGAAUAACCGAACAAGACCUUA   1201 Target Full Sequence	0.0	Zea mays PCO106710 mRNA sequence	NA	coding protein	psRNATarget
EZ059008.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||=||||||||| targets:74   UGGGAAUAACCGAAUAAGACCUUA   97 Target Full Sequence	1.5	TSA: Zea mays contig60130, mRNA sequence	NA	coding protein	psRNATarget
HI403086.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||=||||| targets:122   UGGGAAUAACCGAACAAGGCCUUA   145 Target Full Sequence	1.5	Sequence 1211 from Patent EP2074227	NA	coding protein	psRNATarget
JB163547.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||=||||| targets:122   UGGGAAUAACCGAACAAGGCCUUA   145 Target Full Sequence	1.5	Sequence 1211 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235216.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||=||||| targets:122   UGGGAAUAACCGAACAAGGCCUUA   145 Target Full Sequence	1.5	Sequence 1211 from Patent EP2985353	NA	coding protein	psRNATarget
AY111036.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||=||||| targets:201   UGGGAAUAACCGAACAAGGCCUUA   224 Target Full Sequence	1.5	Zea mays CL1582_4 mRNA sequence	NA	coding protein	psRNATarget
BT086570.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||=||||| targets:242   UGGGAAUAACCGAACAAGGCCUUA   265 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0184M19 mRNA, complete cds	NA	coding protein	psRNATarget
AY109413.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||=||||| targets:1674   UGGGAAUAACCGAACAAGGCCUUA   1697 Target Full Sequence	1.5	Zea mays CL2362_1 mRNA sequence	NA	coding protein	psRNATarget
XM_020551688.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||=||||| targets:2521   UGGGAAUAACCGAACAAGGCCUUA   2544 Target Full Sequence	1.5	PREDICTED: Zea mays hypothetical protein (LOC100383632), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ074510.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||||||*| targets:72   UGGGAAUAACCGAACAAGACCUAA   95 Target Full Sequence	1.5	TSA: Zea mays contig10147, mRNA sequence	NA	coding protein	psRNATarget
BT018247.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:486   UGGGAAUAACCGAACAAGCCCUUA   509 Target Full Sequence	1.5	Zea mays clone EL01N0563E06.c mRNA sequence	NA	coding protein	psRNATarget
BT084790.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||||||*| targets:1135   UGGGAAUAACCGAACAAGACCUAA   1158 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0181D14 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001174684.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:1317   UGGGAAUAACCGAACAAGCCCUUA   1340 Target Full Sequence	1.5	Zea mays Elongation factor G-1 mitochondrial (pco134899), mRNA	NA	coding protein	psRNATarget
BT062563.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:1317   UGGGAAUAACCGAACAAGCCCUUA   1340 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0314E20 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175812.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:1547   UGGGAAUAACCGAACAAGCCCUUA   1570 Target Full Sequence	1.5	Zea mays uncharacterized LOC100383146 (LOC100383146), mRNA	NA	coding protein	psRNATarget
BT066364.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:1547   UGGGAAUAACCGAACAAGCCCUUA   1570 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0009H06 mRNA, complete cds	NA	coding protein	psRNATarget
EU964623.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:1541   UGGGAAUAACCGAACAAGCCCUUA   1564 Target Full Sequence	1.5	Zea mays clone 280415 sorting nexin 1 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020539702.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:2580   UGGGAAUAACCGAACAAGCCCUUA   2603 Target Full Sequence	1.5	PREDICTED: Zea mays receptor kinase-like protein Xa21 (LOC103628995), mRNA	NA	coding protein	psRNATarget
XM_008645434.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:2560   UGGGAAUAACCGAACAAGCCCUUA   2583 Target Full Sequence	1.5	PREDICTED: Zea mays Elongation factor G-1 mitochondrial (pco134899), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT066344.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||||||*| targets:2974   UGGGAAUAACCGAACAAGACCUAA   2997 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0346C18 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175804.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||||||*| targets:2974   UGGGAAUAACCGAACAAGACCUAA   2997 Target Full Sequence	1.5	Zea mays putative ARF GTPase activating domain protein with ankyrin repeat-containing protein (LOC100383138), mRNA	NA	coding protein	psRNATarget
XM_008676887.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||||||||||*||||| targets:2669   UGGGAAUAACCGAACAAGCCCUUA   2692 Target Full Sequence	1.5	PREDICTED: Zea mays lectin-like receptor kinase 7 (LOC100281599), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ113619.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||=||||| targets:17   UAGGAAUAACCGAACAAGGCCUUA   40 Target Full Sequence	1.5	TSA: Zea mays contig49280, mRNA sequence	NA	coding protein	psRNATarget
EU962948.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||||||||*||||||||=||||| targets:1500   UGGGAAUAAGCGAACAAGGCCUUA   1523 Target Full Sequence	2.5	Zea mays clone 246807 pyruvate dehydrogenase E1 component alpha subunit mRNA, complete cds	NA	coding protein	psRNATarget
EU966790.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||||||||*||||||||=||||| targets:1500   UGGGAAUAAGCGAACAAGGCCUUA   1523 Target Full Sequence	2.5	Zea mays clone 297432 pyruvate dehydrogenase E1 component alpha subunit mRNA, complete cds	NA	coding protein	psRNATarget
NM_001156787.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||||||||*||||||||=||||| targets:1544   UGGGAAUAAGCGAACAAGGCCUUA   1567 Target Full Sequence	2.5	Zea mays pyruvate dehydrogenase E1 component alpha subunit (LOC100283889), mRNA	NA	coding protein	psRNATarget
EU966290.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||||||||*||||||||=||||| targets:1544   UGGGAAUAAGCGAACAAGGCCUUA   1567 Target Full Sequence	2.5	Zea mays clone 293206 pyruvate dehydrogenase E1 component alpha subunit mRNA, complete cds	NA	coding protein	psRNATarget
NM_001147267.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||*||||||||||||||=||||| targets:1567   UGGAAAUAACCGAACAAGGCCUUA   1590 Target Full Sequence	1.5	Zea mays UDP-glycosyltransferase 91A1 (gpm263), mRNA	NA	coding protein	psRNATarget
BT039499.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||*||||||||||||||=||||| targets:1567   UGGAAAUAACCGAACAAGGCCUUA   1590 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0016E06 mRNA, complete cds	NA	coding protein	psRNATarget
AY103588.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |||||||||*||||||||=||||| targets:1518   UGGGAAUAAGCGAACAAGGCCUUA   1541 Target Full Sequence	2.5	Zea mays PCO114222 mRNA sequence	NA	coding protein	psRNATarget
BT018572.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||=||||| targets:1866   UAGGAAUAACCGAACAAGGCCUUA   1889 Target Full Sequence	1.5	Zea mays clone EL01N0443D02.d mRNA sequence	NA	coding protein	psRNATarget
EU956028.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||||||||*|||||||||||| targets:1568   AGGGAAUAACCAAACAAGACCUUA   1591 Target Full Sequence	1.5	Zea mays clone 1555850 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
BT062929.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||||||||*|||||||||||| targets:1657   AGGGAAUAACCAAACAAGACCUUA   1680 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0008K15 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001147345.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||||||||*|||||||||||| targets:1758   AGGGAAUAACCAAACAAGACCUUA   1781 Target Full Sequence	1.5	Zea mays uncharacterized LOC100272892 (LOC100272892), mRNA	NA	coding protein	psRNATarget
BT039694.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||||||||*|||||||||||| targets:1758   AGGGAAUAACCAAACAAGACCUUA   1781 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0039F21 mRNA, complete cds	NA	coding protein	psRNATarget
BT042625.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |****|*|||||||||||=||||| targets:889   UCCCCACAACCGAACAAGGCCUUA   912 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0379P04 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020548795.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |****|*|||||||||||=||||| targets:1429   UCCCCACAACCGAACAAGGCCUUA   1452 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100275326 (LOC100275326), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ113717.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||*||||||||||||=||||| targets:76   CGGGAUUAACCGAACAAGGCCUUA   99 Target Full Sequence	2.5	TSA: Zea mays contig49378, mRNA sequence	NA	coding protein	psRNATarget
BT066004.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||*||||||||||||=||||| targets:72   CGGGAUUAACCGAACAAGGCCUUA   95 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0144M24 mRNA, complete cds	NA	coding protein	psRNATarget
BT086611.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||*||||||||||||=||||| targets:1169   CGGGAUUAACCGAACAAGGCCUUA   1192 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0191G08 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001196567.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||*||||||||||||=||||| targets:1233   CGGGAUUAACCGAACAAGGCCUUA   1256 Target Full Sequence	2.5	Zea mays resistance to phytophthora 1 (LOC100501929), mRNA	NA	coding protein	psRNATarget
BT040208.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||*||||||||||||=||||| targets:1393   CGGGAUUAACCGAACAAGGCCUUA   1416 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0071O17 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020539151.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   *||||*||||||||||||=||||| targets:316   CGGGAUUAACCGAACAAGGCCUUA   339 Target Full Sequence	2.5	PREDICTED: Zea mays resistance to phytophthora 1 (LOC100501929), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ076130.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||*|||||||||||||||||||*| targets:77   UGAGAAUAACCGAACAAGACCUAA   100 Target Full Sequence	1.5	TSA: Zea mays contig11767, mRNA sequence	NA	coding protein	psRNATarget
HI409644.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||*||||| targets:123   UAGGAAUAACCGAACAAGCCCUUA   146 Target Full Sequence	1.5	Sequence 7769 from Patent EP2074227	NA	coding protein	psRNATarget
JB170105.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||*||||| targets:123   UAGGAAUAACCGAACAAGCCCUUA   146 Target Full Sequence	1.5	Sequence 7769 from Patent EP2559767	NA	coding protein	psRNATarget
LQ241774.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||*||||| targets:123   UAGGAAUAACCGAACAAGCCCUUA   146 Target Full Sequence	1.5	Sequence 7769 from Patent EP2985353	NA	coding protein	psRNATarget
BT018592.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||||||||||*|||||||*||||| targets:1123   UGGGAAUAACGGAACAAGCCCUUA   1146 Target Full Sequence	2.5	Zea mays clone EL01N0447E06.d mRNA sequence	NA	coding protein	psRNATarget
NM_001152524.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*|||||||||||||||*|||||| targets:1488   UAGGAAUAACCGAACAAAACCUUA   1511 Target Full Sequence	1.5	Zea mays F-box/kelch-repeat protein SKIP6 (IDP176), mRNA	NA	coding protein	psRNATarget
BT063004.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*|||||||||||||||*|||||| targets:1488   UAGGAAUAACCGAACAAAACCUUA   1511 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0016A10 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008651215.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||||||*| targets:483   UAGGAAUAACCGAACAAGACCUGA   506 Target Full Sequence	1.5	PREDICTED: Zea mays putative domain of unknown function (DUF641) containing family protein (LOC103630129), mRNA	NA	coding protein	psRNATarget
XM_008674543.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||*||||| targets:2525   UAGGAAUAACCGAACAAGCCCUUA   2548 Target Full Sequence	1.5	PREDICTED: Zea mays Peptidase M28 family protein (cl4954_1), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008658770.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||*||||| targets:2877   UAGGAAUAACCGAACAAGCCCUUA   2900 Target Full Sequence	1.5	PREDICTED: Zea mays G-type lectin S-receptor-like serine/threonine-protein kinase At2g19130 (LOC103636410), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008658769.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||*||||| targets:2886   UAGGAAUAACCGAACAAGCCCUUA   2909 Target Full Sequence	1.5	PREDICTED: Zea mays G-type lectin S-receptor-like serine/threonine-protein kinase At2g19130 (LOC103636410), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020539455.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*||||||||||||||||*||||| targets:305   UAGGAAUAACCGAACAAGCCCUUA   328 Target Full Sequence	1.5	PREDICTED: Zea mays Putative ARM repeat-containing protein containing family protein (LOC103629927), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008669572.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   **|||||||||||||||*|||||| targets:1344   CAGGAAUAACCGAACAAAACCUUA   1367 Target Full Sequence	1.5	PREDICTED: Zea mays F-box/kelch-repeat protein SKIP6 (IDP176), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ113075.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||*|||||||=|||||||*||||| targets:11   UGAGAAUAACUGAACAAGCCCUUA   34 Target Full Sequence	2.5	TSA: Zea mays contig48736, mRNA sequence	NA	coding protein	psRNATarget
NM_001143004.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*|*|||||=|||||||||||||| targets:1435   UUGAAAUAAUCGAACAAGACCUUA   1458 Target Full Sequence	1.0	Zea mays Sas10/Utp3/C1D family (pco144488), mRNA	NA	coding protein	psRNATarget
BT037007.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*|*|||||=|||||||||||||| targets:1435   UUGAAAUAAUCGAACAAGACCUUA   1458 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0151F19 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020547644.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |*|*||||||||||||||=||||| targets:2635   UAGAAAUAACCGAACAAGGCCUUA   2658 Target Full Sequence	1.5	PREDICTED: Zea mays putative ABC1 and kinase-like domain family protein (LOC100279203), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008679798.2	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||**|||||||||||||||||||= targets:169   UGUAAAUAACCGAACAAGACCUUG   192 Target Full Sequence	1.0	PREDICTED: Zea mays receptor-like protein kinase HSL1 (LOC103652818), transcript variant X2, mRNA	NA	coding protein	psRNATarget
AY111503.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   |***||||||=||||||||||||| targets:186   UUAAAAUAACUGAACAAGACCUUA   209 Target Full Sequence	1.0	Zea mays CL14541_1 mRNA sequence	NA	coding protein	psRNATarget
EU972046.1	ncRNA:24   ACCCUUAUUGGCUUGUUCUGGAAU   1   ||**||||||||||||||*||||| targets:809   UGAAAAUAACCGAACAAGCCCUUA   832 Target Full Sequence	1.5	Zea mays clone 373861 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget