Transcript

Sequence

>Osa04LNT0253200.1

ATGTGGTCAGCTTGCACCTCCTTCCTTCCTCACATCTGAACTAATGGCCGCCTGGGAGGTTCTCGTTTTATTGATGCAGCGCCATGTCGGTTCTTGGTGGATGCCGAATCCTTCAAGATACTCCTTCCCCGTTCCATGTTCACCGAGGACAAGGAAGCTGGGAAAAGGAACAGGAGGATATATTGCATACAGTTAAGTGATCGAGGTCCTAATGGATGCCAGTGGTGATGGCGCCACAGGAATGCTGTCTTGTTCGCCGTCCTTAATCTGGCCTGAAATGCATGAACTGAACTGTAGCACCTTCTCGCCGACATGGTCGCAGCAAGGAAGCGGATACACTTGAGCACAAGGTGCGGGACAGATACGATCTACAATACCTGACGGTGACGAGAGGTACGCACCCACTTGATTTCTGCGTCCTCAGCGGAATAAAAGATGGACCGAGAATTTTCGTTCAGAGAAATTATATTCAGAGCCCTGAGTGTCATGTTCTCTCGATTTGCATGTGCAGCCCTTTTCATATTTTTTTAGTTTGATCGGCTGGACAATTTGATACTTACAGTTGTGTCAAAAGCTCTGAAACGTTACGAAAATTATGGTGCTTATAGACATCATGCTCTAAATGTCAATTAGAAATATGCCATTTGCAATTTTGC

Coding Potentia

Explanation	CPC Score
noncoding	-1.29791

Genome Browser

Expression

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

Variation

Transcript ID	Chromosome	Locus	Ref	Alt
Osa04LNT0253200.1	4	9689116	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
Osa04LNT0253200.1	osa-miR5539a	Translation	4.5	18.403	1	22
Osa04LNT0253200.1	osa-miR5793	Translation	5.0	17.877	1	21
Osa04LNT0253200.1	osa-miR5539b	Translation	4.5	18.403	1	22
Osa04LNT0253200.1	osa-miR5505	Cleavage	3.5	19.092	1	22

QTL

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa04LNT0253200.1	4	spp4-2	Morphological trait	Panicle/flower	RG449	CDO456
Osa04LNT0253200.1	4	qPEN-4	Morphological trait	Panicle/flower	RG190	RG908
Osa04LNT0253200.1	4	An8-glum	Morphological trait	Panicle/flower	nan	nan
Osa04LNT0253200.1	4	nan	Morphological trait	Root	RM261	RZ69
Osa04LNT0253200.1	4	nan	Morphological trait	Root	RM261	RZ69
Osa04LNT0253200.1	4	qCCFJ-4	Physiological trait	Source activity	RM261	RM3785
Osa04LNT0253200.1	4	qSNP-4a	Morphological trait	Panicle/flower	RM401	RM335
Osa04LNT0253200.1	4	qCER4-1	Morphological trait	Shoot/Seedling	RG190	RZ69
Osa04LNT0253200.1	4	gwt4a	Morphological trait	Seed	RG788	RG190
Osa04LNT0253200.1	4	gwt4a	Morphological trait	Seed	RG788	RG190

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