Transcript

Sequence

>Osa02LNT0152300.4

CAACAAGAAGGGAACATCCCTCGTATATATAAAGCATCCTGAGAACCCACAGTAAGGACCTATGTGTGTAAAAAGGTACAAAATTTTCTATCTCAAACAAGGACAAAGCGATGACTAATTTCTGTGGGTTTTATCGTCGGATATGCCGATCTTAAAGCACGCCCAATGATTATACAAGTGGAGGAAAACGGCCTTCACATAGTTTCAGTAGGAGTCAGCAACCTTTACAAGCTGAATCAGTGTATCAGGTTGCTGTCCCGCTGATTCACTATTGGTCAGGAGTCAATAACTTGCTCAACTACAGCTTTTATGCTGATGATTCTTCGTTGTTCGTACCCCACTGTTCCTCGGTATCATTTCCGTTCACAAGGACAGCACCATCAGTCGAACCATCAGCTTCAACATCAACCTCAACAGCATCTTCTTGGCTCTCTTCTACTCCATTTTCCTCAATAGCCTCGTGAGTGTCATCTCCATTTTCATCTGGCAGCACCTCCTCTAGATGTATATGCATACTTTTGAAAGCTTCCACCAGAGTCTCATTGGGCCTCTCAGCATGGATAATGTACTCCTCAGCTGGTGGATAAATACCCCTTTTGGGCGCGACATTAGCTTCTACATTGAGAGCAATTTGCCAGTCTTCAAACAAGTTTGGGTACTCGTCAGGATCTGCCAATGATTCTGCTGCTTTGGGGTTTACCTTTTGGAGATCCTTTTTCCATAATGTTACAATCTCAGGGACTTTGCTCGGAAGATAAGATCTCGACATCAATGCTGCTTCTGGTATACGATTACTTTCGATTAACAACTGAAGGCATTCTTCAAGTTTTCCTAGCATGAAGAAACAAAGGAAAGCAACATTGTTCTTCCCTTGTTCTTTAGCCATAGATGTTAATTTTGTTAGCCCTTCAGCATCACCAAGGGATGAATACAGAAGTAATAAACCACTGAGGTCCATAGCATGTAGAAGACACTCCTCTGCCATATCAAGCTTTCCGGTTGACATAGCTAACTCTCCTAACTGCCTCCACTTGGACTCACTTTGTGCCTCAATGGCAATTGCCTTTGCAACTTCAAGCCGACCAAGCTGCACGGCCAAGTCAAATCTGTAATTAGAGTCTGTTGCTATCTCAAGGGCTTCTTCCAACATGCCCTGTGATTCCAAGAAACGTGCCACACTGTCATGTTGTTCTTTTGGTATAGATGGTAAAAGAGCGTTTGCACGATCGAAGTCTCCACGCATTACAAGTGTTTTATACTCAATCATGGTAAGGAGTAAAGTATACCCCACAACATTAAATTGCTTGTCAATAAGATAGACACGGCTTTGGTTAGCAAGATATCCCAGTAAATACATTTGCCGATCCAAGTGAAATAAGGTTGTGACCTCTCCTCCTACACAGTAATTAAGCCGTGACGAAGAATTGTTGTAGATAAAACAATCACCAACCCATAGGCCAGTTCGGATGCGTTCATTGATCTCATGAAGTAGTTCAAAGGCATCTTCCACACCTTCCTCGCCAACTGAACCCCCTCCATCCAAATGAGAAGAAACTACATCCCTATTGTACTTCAAAATGTAGAATGAGGTGTCACTTGCAATTGTCACTAAATCACCACTATCGGCCCAATAGAGATTTTTCACATTGACATCAATTCTGCGTATCATCCTGCCCTCTGCCCAGTCATGGAAGCAAATAAAATCATTTGTACACATAGCCAGCAATACTCCACCAAATATACGTTCTGCAGAAAATGGTGGTCTTATACTCTTTCTCTCCTGGAAATTTTTACTGTATATCTTTATCCTCGACGTGCTTTCTCTGACAGCATATTCTCCATCAACTGACCAAACAAATTCAAGTGCAGACCCGAATGATCTATTTCTCCATGCTAATGCAGTGTAGATTATGTATTCTCCATCTCCACATACAACAACAAATCTCCCATTCGGATTGTGCCTTAAGCTTTGTGGATAAAGATCACAGGTTCCCAACTCCTTCACAGCTAAGGGTAAGCGCTCACCATCTGCAATCTCATTGTCTGCACCAATAGTCTTGATATTAACAGTTTGGATTTCATTATGTTTTGACCATATGATTTTTCCACTGCTGTCCATGCTAGCAACAGGAACTTCACGACCAATTTTTATCATTATTGTCCCTTCATCATATCCGATCACAACCCTTCTTGAACCCTTCATGTATCCTAAAGCCCACACTCGCTCAAGGCCATAGTTAAGAGTGTTCTCAAGCCTGTAGGTAGTAGAGTGCCACAAGCGAACTGTCCCATCCTCGGAGCCAGTAAGTGTTATAGGTAACTCCGGATGGAAACAAACAGCAGAGACATTATGTGCATGTCCTTCAAGCGTTTGAACACAGCTCTTCGTTTGATAGTCCCAAACCTTCGCGGTTTGATCATCAGAGCCTGTAATTAAGTATGGGCGATCACCACCAGTAAAGTAATCAACACAATTGACACCTTTTGAATGGCCATCTAATGTGAAATTAGGATCAGGGGAACCAAGACTCCATACCTTTACTGTGCGATCAAGGGAAGCACTAGCAAAAGTATTGGTATCTTTCGGGTTAAATGTGACTTGCATAACATAGTGAGAATGCCCCTCGAAGATTTGAGTGCACATCCAACCCTTATCCCAATCCCAAAGCTTGATCAGCATGTCATCAGATGATGACAGCACAAAAGGCTGGGTTGGGTGAACAGCCACACACCTGATGTAATCCGTATGAGCTTCAAAAACCTTGACCTTATCCATCGTATTGTAATTGTACACACGTATGAACATATCATCGGCACCAGCAACTATCCATTGTTTCCGTGCGATAAATTTAGATGACCGAACTGGTAACTCTGTGACTTCAAATGATTTCACCATCGTCTGCGTCTGGTAGTTCCAGATGCAGACGCTCCCTGAATACAGACTCGACAAAATCCATGGCTCGGTCGGATGCAGATCCACGGACTTGACCCTCTCCGACCTCTGCGCGAGCTTCCTCTTGATATCCAACCTGAGCGGCATTGTGGCGCCCGCGACGGCCGGCTACGGCGGGGACGCGGCGGTAGAGGTGGGCTGTGAGGCCGTCGTGGGTGGAGGGGCGCCGGAGTGGAGAGAGGCGGCGGCGCGAGGCCTCGTTTTCTCGGCTCTCGCGGTGTCGCCTGCGGGGAGGGGGAGTAGGACG

Coding Potentia

Explanation	CPC Score
noncoding	-1.16363

Genome Browser

Expression

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

Variation

Transcript ID	Chromosome	Locus	Ref	Alt
Osa02LNT0152300.4	2	6139810	A	G
Osa02LNT0152300.4	2	6133939	A	C
Osa02LNT0152300.4	2	6133188	G	C
Osa02LNT0152300.4	2	6133316	G	A
Osa02LNT0152300.4	2	6134868	C	A
Osa02LNT0152300.4	2	6135116	A	G
Osa02LNT0152300.4	2	6135138	A	G
Osa02LNT0152300.4	2	6135227	A	C
Osa02LNT0152300.4	2	6135237	G	T
Osa02LNT0152300.4	2	6135564	A	C
Osa02LNT0152300.4	2	6136426	A	T
Osa02LNT0152300.4	2	6136497	T	G
Osa02LNT0152300.4	2	6136851	C	A
Osa02LNT0152300.4	2	6138174	C	A
Osa02LNT0152300.4	2	6138849	T	C
Osa02LNT0152300.4	2	6134556	A	T
Osa02LNT0152300.4	2	6138869	T	C
Osa02LNT0152300.4	2	6138880	C	T
Osa02LNT0152300.4	2	6139311	G	A
Osa02LNT0152300.4	2	6139393	C	T
Osa02LNT0152300.4	2	6140048	C	T
Osa02LNT0152300.4	2	6140388	C	T
Osa02LNT0152300.4	2	6132526	C	T
Osa02LNT0152300.4	2	6140489	T	G
Osa02LNT0152300.4	2	6132430	T	G
Osa02LNT0152300.4	2	6132016	A	T

Transposon

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

small RNA targets

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa02LNT0152300.4	osa-miR5812	Cleavage	5.0	17.529	1	24
Osa02LNT0152300.4	osa-miR5837.1	Translation	4.5	14.766	1	21
Osa02LNT0152300.4	osa-miR6255	Cleavage	4.0	11.913	1	22
Osa02LNT0152300.4	osa-miR164c	Translation	4.5	12.519	1	21
Osa02LNT0152300.4	osa-miR530-3p	Cleavage	4.5	15.076	1	21
Osa02LNT0152300.4	osa-miR1847.1	Translation	5.0	12.526	1	21
Osa02LNT0152300.4	osa-miR2099-3p	Cleavage	4.5	17.692	1	20
Osa02LNT0152300.4	osa-miR2931	Translation	5.0	19.235	1	20
Osa02LNT0152300.4	osa-miR5541	Translation	5.0	19.21	1	21

QTL

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa02LNT0152300.4	2	qPH-2	Morphological trait	Dwarf	RG324	RG83
Osa02LNT0152300.4	2	qEML-2	Morphological trait	Seed	R2344	R712
Osa02LNT0152300.4	2	tms5	Physiological trait	Sterility	nan	nan
Osa02LNT0152300.4	2	nan	Resistance or Tolerance	Drought tolerance	RG83	RG171
Osa02LNT0152300.4	2	qLER-2	Morphological trait	Culm/leaf	R2344	R712

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