Transcript

Sequence

>Osa06LNT0335100.1

CCGGCCAGAAGCCCTCATGACCTCTATCTACTTTCTGTGTCTCGCTATGAGCGATTCTTAGGACGCTTAGAAACAAAATTTGATGCCCACGTTAAAAGGCCCGCGATGCTGACGGCTACTCCAAATCCTGAGTGTAATTCTGCAATTAACTCACGGAGTTCTCTCACGGTACTAGCGAGCAAAGGCTCTCCTGCTGCTCTCTTTCGATTACTAGTCACCCTCTGATTTCCTTGTGGGGCAGAGGTCGTCAGTTGGTGCAGTTGAGCATCGGCTGCATGAACAACGCTCATGGAACTTTGGACGCCCTTCCTCAATTCTTGACTGATCTTAGATTACTGAGATCCACAGCCAAGTCACAGATCTCCCTTCCAACTAGTTTCACTGAAGCCATGGTTTCAGGAAGCTTCTCTCTTGCTGAACCGAAGGACTTCTCAAGAGATTCTGCTGCCTTCTTGCATTCCTAAAAATGTCGGCATATCTGTAACGAGGAGGGAGTGGATGGTGCCGTTGATGGTGGTAGGAAGAGCCACCGCCTCTCCTTCTCCCATGCCGCTCGTCGCCGGCCGCCACCGCCGCCGCGTTGGCCGCTGCTGCCCTCGCCCCACCCCGTCCCGCCGCGCCGCGCCGGCTAGCCTGCCCAGGGAAGACCGGAAGAGTGAGAGAGAGGAGTAAGGGATAGAGGAGAGGAAGAAGGGAGAGAAGGTG

Coding Potentia

Explanation	CPC Score
noncoding (weak)	-0.796342

Genome Browser

Expression

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

Variation

Transcript ID	Chromosome	Locus	Ref	Alt
Osa06LNT0335100.1	6	6489770	G	A
Osa06LNT0335100.1	6	6489682	G	A
Osa06LNT0335100.1	6	6489912	C	T
Osa06LNT0335100.1	6	6490868	A	C
Osa06LNT0335100.1	6	6491501	A	G
Osa06LNT0335100.1	6	6491796	C	T
Osa06LNT0335100.1	6	6491800	A	G
Osa06LNT0335100.1	6	6491802	T	C
Osa06LNT0335100.1	6	6491815	T	C
Osa06LNT0335100.1	6	6491842	A	G
Osa06LNT0335100.1	6	6491984	A	G
Osa06LNT0335100.1	6	6492217	T	C
Osa06LNT0335100.1	6	6492275	T	C
Osa06LNT0335100.1	6	6492407	T	C
Osa06LNT0335100.1	6	6492432	T	C
Osa06LNT0335100.1	6	6492492	T	C
Osa06LNT0335100.1	6	6492615	A	C
Osa06LNT0335100.1	6	6492629	T	C
Osa06LNT0335100.1	6	6492691	T	C
Osa06LNT0335100.1	6	6492734	C	T
Osa06LNT0335100.1	6	6493691	A	G
Osa06LNT0335100.1	6	6489581	C	T
Osa06LNT0335100.1	6	6493285	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
Osa06LNT0335100.1	osa-miR2096-3p	Cleavage	5.0	18.111	1	21
Osa06LNT0335100.1	osa-miR2275d	Cleavage	4.5	22.818	1	22

QTL

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa06LNT0335100.1	6	asv6-1	Physiological trait	Eating quality	RM3	RM217
Osa06LNT0335100.1	6	sd6	Morphological trait	Seed	RG138	RG64
Osa06LNT0335100.1	6	sd6	Morphological trait	Panicle/flower	RG138	RG64
Osa06LNT0335100.1	6	tns6	Morphological trait	Panicle/flower	RG138	RG64
Osa06LNT0335100.1	6	qLDLJ-6-1,2,3	Physiological trait	Source activity	RM217	RM3
Osa06LNT0335100.1	6	tns6	Morphological trait	Seed	RG138	RG64
Osa06LNT0335100.1	6	spf6	Physiological trait	Sterility	RG213	RM557
Osa06LNT0335100.1	6	S5	Physiological trait	Sterility	RG213	C235
Osa06LNT0335100.1	6	nan	Morphological trait	Panicle/flower	RM276	RM121
Osa06LNT0335100.1	6	nan	Physiological trait	Source activity	RM276	RM121
Osa06LNT0335100.1	6	nan	Physiological trait	Eating quality	RM253	RM162
Osa06LNT0335100.1	6	qGT-6	Physiological trait	Eating quality	RM276	RM121
Osa06LNT0335100.1	6	nan	Physiological trait	Eating quality	RM276	RM549
Osa06LNT0335100.1	6	nan	Physiological trait	Eating quality	RM276	RM549
Osa06LNT0335100.1	6	nan	Physiological trait	Eating quality	RM276	RM549
Osa06LNT0335100.1	6	amy6-1	Physiological trait	Eating quality	RM3	RM217

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