Transcript

Sequence

>Osa03LNT0218500.1

AGTTTTCAATCTCTCATGAATAAATGGGCAAGTACAAGTACCATGATCGACCGTGTGCGATTTACATAATATTCACAGGTTTTGAGAGGTGAGTCTGTACATAGCACCATTTCAGAGTTCAGAATGCAAACTCAGAGAACCACAACCAAAATGAGCTTCAGATTCAGCGCAACTGCGTTGCCACACGACTTCGTGGTGGAAATACCGCAATCCTTTCTTTCCCAACAAAAAAATTACTGCATTTCAATCATACTTAACTTGTCACCGTTTTCGTCCGCTCAGCAAACCATGCCTTCCAGTCAGTAACCTTTTCGTCACCATTGGCCACCTCAAAAATGAGTGTTGTCTGGGGAATGGAGTCCAGGGCCTCCACACAGATTGTAGCAGCATCTTCTTTGCTCATTCTTCCCTTGGCTGCTGCACCCTCTGTAAAATCGAAACCTCTATCACCACCAGGAGTGCTTTGCATCGAGCCAGTCCTGATTATCGTGGATGGGATCCCAGATGCAAGAACCACTTCTTCATCCCTCTCAGCAAGTTTCCGCAGTTTGCTGTTCATAATAGCTTGGAGACCACCGCTACCTCTGGGATAGCAGAACAATGTGTTGCACACCCTTGAGGTCCAAGTCAGAGAAGAAACCATCATCAGCTGGACAAATTATAGCACGAACACCCCTTAGTGCTTTCTTTGTGAAGGACTTATCTTCCATATTACCAACCATGCACTCCACGTAAGTTCCAAATGCTTCTTCAGTGGATCGCCTGTCCTTCACTAATGCTTTTATTCTGGCCCTTTTCAGGATTAATGATAATATCACCATCTGTCCAATCTCGCTATCGCCATTGGTGACTAGCACAGCATCTCGAGGCTCCTCGATATCTGAAGGCTCATCCTCCCCATCCTCAGCACTCCCATCCTTGGGAAGCAAATCGGGCGCTCCATACCACCGCCTCAACTTTGGACCCCCTTCGATGTAGTCGAGGATGCGGTCGGTGAAGCTGGCCTCGTCCTTGCTCCTGGACCGGACGACGACGGCGGTGGCGGCATTGAAGAGGGGCCTCCTAGAGAGTCTCGCGGCGGACGCAAGCTGCGGCGGCGGAGGAGGAGGAGGAGGAGGGCGCGGGGCGGCGGAGCGGCCGGGGAGAAGGGCGGTGGGCGGCGGCATATCTGGTGGTGGTGGACCGTGCTGCTTCGCCTGCGGCGCGTGACGTCACGTCGTCGTCGTCGGCCGGATTTCGCGTGCG

Coding Potentia

Explanation	CPC Score
noncoding	-1.02029

Genome Browser

Expression

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

Variation

Transcript ID	Chromosome	Locus	Ref	Alt
Osa03LNT0218500.1	3	16937618	T	A
Osa03LNT0218500.1	3	16937643	A	G
Osa03LNT0218500.1	3	16937768	G	T
Osa03LNT0218500.1	3	16938457	T	A
Osa03LNT0218500.1	3	16938859	T	C
Osa03LNT0218500.1	3	16939412	G	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
Osa03LNT0218500.1	osa-miR5837.2	Cleavage	3.5	20.343	1	21
Osa03LNT0218500.1	osa-miR2095-3p	Cleavage	4.5	23.436	1	20

QTL

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa03LNT0218500.1	3	gw3.1	Morphological trait	Seed	RZ672	RZ474
Osa03LNT0218500.1	3	qGL-3	Morphological trait	Seed	R19	C1677
Osa03LNT0218500.1	3	qLWR-3	Morphological trait	Seed	R19	C1677
Osa03LNT0218500.1	3	ccf3b	Physiological trait	Source activity	RM16	RM282
Osa03LNT0218500.1	3	ccfs3	Physiological trait	Source activity	RM16	RM282
Osa03LNT0218500.1	3	nan	Resistance or Tolerance	Other stress resistance	RM4512	RM8208
Osa03LNT0218500.1	3	nan	Resistance or Tolerance	Other stress resistance	RM4512	RM8208
Osa03LNT0218500.1	3	qDLR3	Resistance or Tolerance	Other soil stress tolerance	RM338	RM2453
Osa03LNT0218500.1	3	qGL3-1	Physiological trait	Eating quality	nan	nan
Osa03LNT0218500.1	3	nan	Morphological trait	Panicle/flower	RZ403	RZ452
Osa03LNT0218500.1	3	An5(t)	Morphological trait	Panicle/flower	C1677	R19
Osa03LNT0218500.1	3	nan	Morphological trait	Shoot/Seedling	RZ284	RZ403
Osa03LNT0218500.1	3	nan	Morphological trait	Shoot/Seedling	RZ452	RZ448

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
Osa03LNT0218500.1	3	16937781	Grain-length(mm)	17.48228645	-
Osa03LNT0218500.1	3	16937858	Grain-length(mm)	17.97535324	-
Osa03LNT0218500.1	3	16938156	Grain-length(mm)	14.01366234	-
Osa03LNT0218500.1	3	16939127	Grain-length(mm)	13.05501175	-
Osa03LNT0218500.1	3	16939412	Grain-length(mm)	19.82266426	-
Osa03LNT0218500.1	3	16939697	Grain-length(mm)	16.92744255	-
Osa03LNT0218500.1	3	16939840	Grain-length(mm)	18.21829033	-
Osa03LNT0218500.1	3	16939884	Grain-length(mm)	13.13786793	-
Osa03LNT0218500.1	3	16940176	Grain-length(mm)	9.52043438	-