Transcript

Sequence

>Osa05LNT0296700.2

ATATAGTGATATCCACCAGAACTCCTAGTACCACAAAATATATCATTCTGGTTCAAGATTGCCACGACCATTTTCGAGATCCTACGTGACGCTGATGTGACATTATCATACAGATGCAAACGTGGCATCATCACTAGCCTACAGAAACTGACGAAGTATAAAGGCATAGGTACATGCAAACAAATTTAGAAACCTGCCGTGCTCCTTAATCTACTACATTAAACTTGCTAAGTTGTCACCAGCCCACGACCTGAATCCACACTCAGCCTTATATATATATATATAGCCTAATCAACAAACGGTATTAGGAAATTACATGCCCACCAAGACTTTCACGAGATAACACCAATGGTTATTTGCACCACATCATTTTAGCTGATAGCAATGTTCTTCTTGCATCATCTGCGATAGTTGCAGCAGAAAACTTATCAGGTATATTAGCTTCAGATTCCACTGATGATTTTGCTATAGCAATCCCAACCGCAACAGATTGCATCATACCCAAACCTCCACATAGAGCTGAAATGACTCCACCAACAAAACAATCACCAGCACCTGTGAGGCTAACCACTGAGGCAGATACTGCAGGAAAATGAAAAACACATGTTCTGGAAGAGCCTTCTCTAGGCAAATCTACAAGCATGTTAGATGGAAAACATCGCTCCAATTTTTGAAGTAGTGGAGTTGAGAAAGACATCATTTCAGACTTTCGCTGGTCCATCAAACTTGTGCTCTCTTTGCAACAAACAAAAACACCATTTGAGCCAAGCGTCACCAGAAGAAACTTTATGCCCTTTTCGAGGAGGAAAAACATTGCTGGGCTGAGCATTTCAAACAAATACTCTACAGCTTTGGCTTTGTTCTTGGACTGCTCCATTTTGACAAAAGTATATTTCTCAGGAGGAGATAATGAATTTGCCATTGCCACAAGCTCAATCTCATTTGGGGAAGTGTAAGTAATATATTTTGCAATTGGTGCAATCCTTGAACCCTTCGCAAGTGAGACAGGCTCAAAAAACACAGGCACTCCTGATTCATGTGCTATTTTGCAGGCGGCTTCAAGTGAATCAGGAGATAAATTTGCATCAAGCATTAGTAGAGGTGCAGTGGAGATATGAAGACGGAACTGACATATCCAGCTAGGAGAGAGAAATTTTTCAACTGCCCCAACACTTGCAACGCCAGCAATTAATTCACCGCTCCCATCAAACACATTTGATACTATTGGGGTTGTTACGTCATCAATCTGCAGTATTCCATCTGTACATAGTCCAGCCGACCTCCAGTATTTCAAAAGGAAATCCCCATCCCAGGCACAGTCGTTCCAGGATGCGGCTGCATGGATGGCTTGGCATGGATGTCCAGCACCATCCCCCCAATAATCACTGGAGATGACTCCAGCCTGATGGCACCTAACGGATTCTGGTAAAGGATAGGCGGTGATGCTGGGAGGAGGTGGCGGCAGACAGACTCCATCCTCCGCAGGGGAGAGGAGGTGGTGGTGGCCCCAGCCATGGAGAAGGACAGGTTCAGGGGGCCAAAGATTGCAAAGCCACCTATCAAGATCTGCCAGTTTGGGCAGTGGCACACGAGTGAGGCCTGTTCAGTTACTAGCTGACTTGCACTAGACTTTTGTTTCTGGTCCTGGTTGGCGTTGATCCAATGCCCATATGTGCCTGAGTGCTGAGTGCTAACTCACTTTCAATTTATGATACTTCAAAATGGTGTTCCAGGATGCCTGCGCCCTTGCTTGCTCGCGGGATGGATGGGGATCGGCGGCGGCGGCGGCGGCGGTGGCGGCGGCCGAACTCGCGAGTCGACGACGAGCGGACGCCGCACGACGATTTCCTTTTTCGTCTTCTTTTATTT

Coding Potentia

Explanation	CPC Score
noncoding (weak)	-0.863347

Genome Browser

Expression

Axis x: Treatment
Axis y: FPKM
Value above bar: Standard deviation

Variation

Transcript ID	Chromosome	Locus	Ref	Alt
Osa05LNT0296700.2	5	5256463	T	A
Osa05LNT0296700.2	5	5256714	T	C
Osa05LNT0296700.2	5	5257112	G	A
Osa05LNT0296700.2	5	5258299	G	C
Osa05LNT0296700.2	5	5259120	T	C
Osa05LNT0296700.2	5	5260065	A	G
Osa05LNT0296700.2	5	5260140	T	G
Osa05LNT0296700.2	5	5261367	T	C
Osa05LNT0296700.2	5	5261444	T	C
Osa05LNT0296700.2	5	5261530	A	G
Osa05LNT0296700.2	5	5261587	A	G
Osa05LNT0296700.2	5	5262034	A	G

Transposon

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

small RNA targets

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa05LNT0296700.2	osa-miR5533	Cleavage	4.5	24.465	1	21
Osa05LNT0296700.2	osa-miR5829	Cleavage	5.0	21.637	1	24
Osa05LNT0296700.2	osa-miR2873c	Cleavage	3.0	17.81	1	21
Osa05LNT0296700.2	osa-miR167a-5p	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167b	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167c-5p	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167d-5p	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167e-5p	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167f	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167g	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167h-5p	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167i-5p	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR167j	Translation	4.0	24.879	1	21
Osa05LNT0296700.2	osa-miR2099-3p	Cleavage	4.0	18.422	1	20
Osa05LNT0296700.2	osa-miR2121a	Cleavage	4.0	16.311	1	24
Osa05LNT0296700.2	osa-miR2121b	Cleavage	4.0	16.311	1	24
Osa05LNT0296700.2	osa-miR2275a	Cleavage	4.5	15.728	1	22
Osa05LNT0296700.2	osa-miR2275b	Cleavage	4.5	15.728	1	22
Osa05LNT0296700.2	osa-miR5488	Translation	5.0	17.085	1	21
Osa05LNT0296700.2	osa-miR2275d	Cleavage	4.5	15.728	1	22

QTL

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2

pre-miRNA

Transcript ID	Pre-miRNA	Identity(%)	Alignment Length	Pre-miRNA start	Pre-miRNA end	E-value	Bitscore

GWAS

Transcript ID	Chromosome	Locus	Trait	Value	Plus Minus
Osa05LNT0296700.2	5	5254353	Grain-Width(mm)	13.63950539	-
Osa05LNT0296700.2	5	5254390	Grain-Width(mm)	13.43128967	-
Osa05LNT0296700.2	5	5255718	Grain-Width(mm)	14.47535992	-
Osa05LNT0296700.2	5	5256015	Grain-Width(mm)	14.00487041	-
Osa05LNT0296700.2	5	5256245	Grain-Width(mm)	13.43347454	-
Osa05LNT0296700.2	5	5257112	Grain-Width(mm)	13.52111816	-
Osa05LNT0296700.2	5	5257332	Grain-Width(mm)	13.71792412	-
Osa05LNT0296700.2	5	5257354	Grain-Width(mm)	13.51823139	-
Osa05LNT0296700.2	5	5257373	Grain-Width(mm)	14.24429226	-
Osa05LNT0296700.2	5	5257718	Grain-Width(mm)	12.69194221	-
Osa05LNT0296700.2	5	5257938	Grain-Width(mm)	12.97031975	-
Osa05LNT0296700.2	5	5258180	Grain-Width(mm)	12.79724026	-
Osa05LNT0296700.2	5	5258200	Grain-Width(mm)	13.92170238	-
Osa05LNT0296700.2	5	5258388	Grain-Width(mm)	13.1309824	-
Osa05LNT0296700.2	5	5258422	Grain-Width(mm)	13.96293926	-
Osa05LNT0296700.2	5	5258988	Grain-Width(mm)	11.87870502	-
Osa05LNT0296700.2	5	5259120	Grain-Width(mm)	13.47486305	-
Osa05LNT0296700.2	5	5259849	Grain-Width(mm)	13.80108356	-
Osa05LNT0296700.2	5	5260186	Grain-Width(mm)	11.79763794	-
Osa05LNT0296700.2	5	5260301	Grain-Width(mm)	12.88994026	-
Osa05LNT0296700.2	5	5260461	Grain-Width(mm)	13.41463566	-
Osa05LNT0296700.2	5	5260681	Grain-Width(mm)	12.2117033	-
Osa05LNT0296700.2	5	5260760	Grain-Width(mm)	11.96320534	-
Osa05LNT0296700.2	5	5260853	Grain-Width(mm)	13.6519146	-
Osa05LNT0296700.2	5	5261367	Grain-Width(mm)	13.80804253	-
Osa05LNT0296700.2	5	5261524	Grain-Width(mm)	13.79020786	-
Osa05LNT0296700.2	5	5261587	Grain-Width(mm)	12.01916885	-
Osa05LNT0296700.2	5	5261592	Grain-Width(mm)	13.83790016	-
Osa05LNT0296700.2	5	5261889	Grain-Width(mm)	13.36503506	-
Osa05LNT0296700.2	5	5262114	Grain-Width(mm)	11.33729839	-