Transcript

Sequence

>Osa04LNT0250600.1

CGTTCGTGCGCGTTCGGCTATTTTCTGCCCTTCCTCGTATCCATCTGCGACATTACCCACCGCGCACGGCGGCGACACGGCAGTGGCCGGCCGGGGTACTGGGCTTCAGCGGCTACAGCCTATGGGAGTTTCTGGGCGCTGGCCGCGGCCGCCGGACCGGTGGTCTCCTGACGCGCTTCCACAAGAAGAGGAGTATCTCAGTGAAGGTGATGATCTGGAGGATTAGGCTTGTTCTCGGTTAAGATGCCTGTGGAGTGGAGTCGCCATAGCTGTTCCGTAGTTTGTTATCGTTTTTTTTCTTTTCCGCTGCGTAGAATGTTATTCTTTGGGAGGAACTATCCACCTCTGTAATAATTTATTTTATTTGCGAATATTAAATAGTCTTTTATTTGAACTCTATTATTAATTTGTCATTGTGTGCCTCGGTTGATTCCTGGACGAGGGTTTAACACACATGTAAGCGTTTGGAATTTTGGATAGAAATTCCGGGCGTGACACTACCTTTTCAACAAAATCCTGTCATTCAGACTATTCCTCATCAGTAATTCATTTCCT

Coding Potentia

Explanation	CPC Score
noncoding	-1.13616

Genome Browser

Expression

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

Variation

Transcript ID	Chromosome	Locus	Ref	Alt
Osa04LNT0250600.1	4	6962025	G	C
Osa04LNT0250600.1	4	6961814	G	A
Osa04LNT0250600.1	4	6961877	G	T
Osa04LNT0250600.1	4	6961922	T	C
Osa04LNT0250600.1	4	6961956	A	G
Osa04LNT0250600.1	4	6962170	C	T
Osa04LNT0250600.1	4	6962358	C	G
Osa04LNT0250600.1	4	6962398	T	C

Transposon

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

small RNA targets

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa04LNT0250600.1	osa-miR396g	Translation	4.5	21.053	1	21
Osa04LNT0250600.1	osa-miR396h	Translation	4.5	21.053	1	21
Osa04LNT0250600.1	osa-miR396d	Translation	4.5	21.053	1	21
Osa04LNT0250600.1	osa-miR5151	Translation	5.0	10.029	1	22
Osa04LNT0250600.1	osa-miR5513	Translation	5.0	15.561	1	21
Osa04LNT0250600.1	osa-miR5810	Translation	4.0	16.92	1	24

QTL

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa04LNT0250600.1	4	An8-glum	Morphological trait	Panicle/flower	nan	nan
Osa04LNT0250600.1	4	nan	Morphological trait	Root	RM261	RZ69
Osa04LNT0250600.1	4	nan	Morphological trait	Root	RM261	RZ69
Osa04LNT0250600.1	4	qCCFJ-4	Physiological trait	Source activity	RM261	RM3785
Osa04LNT0250600.1	4	qSNP-4a	Morphological trait	Panicle/flower	RM401	RM335
Osa04LNT0250600.1	4	spp4-2	Morphological trait	Panicle/flower	RG449	CDO456

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