Transcript

Sequence

>Osa06LNT0339800.1

CCTTAATTAATCTTTGTGGATCAAGTTTGGAGTTGGCTGGGCTTCCAGCCCAGGTGCCAGCGTGCACACACATATATATACACTAGTAATCGTGCAATGCACGTTAGAAAATACAACTTAAACCAAATATATCGCACATATGCAGCAGCCTGATTTGTTTTTGAAGTGAGACTACCTTCACACCGCTGTAGCCAACAATTTCAGAAGGTGAATTTTGCAAGTCGGTAGCAAGGTCCTTGACCAGTGTGAAGATTGCCTCCTCTCAATCATCATTGGCTCATTGGAAGCCTTCATGATAACTTTGACATTGTCCGAGCTCCATGCAGCAGTATACGGCAGGCGTGCAGCGTGCTGCACAAAGTACTTCCTTGGGTCTGTCAGTTTCACCTTAGAGCGAGAAAAATGAAAAAGGAAAATCAGTTGGGTCATGTTCATCAGTTGCATGAAGCAACAGATGGTTCTCTTGGTATCGTCTCATCAGCCAGGACATCAAGAAATGAAAAAAAAAAGGAAGATCAGGCCAGAGAAGCTTGAATAAAACGCAACCAAAATCAAAGTCTTGTTATTGGCAAGGTACATGAAGTATTTTAAGCTGGGGGAGGGTGCATACGAAGGAGCGTATTACTCATGGATCTAATCAGATGCAAACAAGAAAGGAGCAACAACAGCAGAAAACATTCGGCCTTTTGCTCCCCTTTTCCACCAGTGACTTAGATCGCAGGCTGCCTCTATCCTCACGCAGCAGCTTTGGCCCCACGCTCCGCACCGGAGCCCTGCAGGCAAAGCGACGAAGGCATATATGGCGGGTGCGGAGTTTCCGATGGAGCTGTTCGTGGCGACGGCTAGGAGGTATGGCGTCCAGGTTTCTCTGCGAGACAGGGCTCGCAGCGAGGATATGGCAGCACACGGCAAGGAGGTTCGGCCCCCGGGGGGTGCGGAGAGGACAGGGCTTGTGGTGCCGTTACAGGCCGCCGGCAGGGTGTAGCACGACGTGAGAGGAGTGGAGGTGTAGTGGGCGGCTGGAGCCTGGAGGTTGGGGTTTTGGAACCGTGGCACAGGTGAGGCGAGGAGGGCCGAGGCGGTGACTGCGCTGGCGGCGGAGACGGAGTAGCCCCACCAGCACCAACGGAAGAGCGCACCACTGCGACGCCAATGGATGAAGGATGCGCGCAGTCGCACGGAGGAAGCAATCTGTGGAGGCATGACGGATGGCGGCGGTGTTAGCGGGCTAGGATGGCGCGGCGGCGGTGTTACCGGGCGGAG

Coding Potentia

Explanation	CPC Score
noncoding (weak)	-0.996861

Genome Browser

Expression

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

Variation

Transcript ID	Chromosome	Locus	Ref	Alt
Osa06LNT0339800.1	6	11448782	G	A
Osa06LNT0339800.1	6	11448824	G	A
Osa06LNT0339800.1	6	11449727	G	C
Osa06LNT0339800.1	6	11450550	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
Osa06LNT0339800.1	osa-miR5790	Translation	4.5	20.358	1	24
Osa06LNT0339800.1	osa-miR2871a-3p	Cleavage	4.0	9.257	1	21
Osa06LNT0339800.1	osa-miR2871b	Cleavage	4.0	9.257	1	21

QTL

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa06LNT0339800.1	6	qSPN-6	Morphological trait	Panicle/flower	C235	G294
Osa06LNT0339800.1	6	qPHw6-2	Resistance or Tolerance	Other soil stress tolerance	RG424	RZ667
Osa06LNT0339800.1	6	qSFWd6	Resistance or Tolerance	Other soil stress tolerance	RG424	RZ667
Osa06LNT0339800.1	6	qSPN-6	Morphological trait	Panicle/flower	C235	G294
Osa06LNT0339800.1	6	Pi-2(t)	Resistance or Tolerance	Blast resistance	nan	nan
Osa06LNT0339800.1	6	gw-6	Morphological trait	Seed	C235	G294
Osa06LNT0339800.1	6	ph6	Morphological trait	Dwarf	RZ667	RG653
Osa06LNT0339800.1	6	qLDLJ-6-1,2,3	Physiological trait	Source activity	RM217	RM3
Osa06LNT0339800.1	6	qNFGP-6	Physiological trait	Source activity	RM136	RG456
Osa06LNT0339800.1	6	qSF-6	Physiological trait	Source activity	RM136	RG456
Osa06LNT0339800.1	6	gp6	Morphological trait	Panicle/flower	RZ667	RG424
Osa06LNT0339800.1	6	qRS6-1	Morphological trait	Shoot/Seedling	RZ667	RG424
Osa06LNT0339800.1	6	qGY6-1	Morphological trait	Seed	RZ667	RG424
Osa06LNT0339800.1	6	qLVBSL6-1	Morphological trait	Panicle/flower	RZ667	RG424
Osa06LNT0339800.1	6	qLVBTL6-1	Morphological trait	Panicle/flower	RZ667	RG424
Osa06LNT0339800.1	6	qSL6-1	Morphological trait	Culm/leaf	RZ667	RG424
Osa06LNT0339800.1	6	qTL6-1	Morphological trait	Culm/leaf	RZ667	RG424
Osa06LNT0339800.1	6	nan	Physiological trait	Eating quality	RM253	RM162
Osa06LNT0339800.1	6	qHD-6-1	Physiological trait	Flowering	RG424	RZ667
Osa06LNT0339800.1	6	qPH2-6-1	Morphological trait	Dwarf	RG424	RZ667
Osa06LNT0339800.1	6	qTN2-6-1	Morphological trait	Culm/leaf	RG424	RZ667
Osa06LNT0339800.1	6	nan	Physiological trait	Flowering	R2171	R2123
Osa06LNT0339800.1	6	amy6-1	Physiological trait	Eating quality	RM3	RM217
Osa06LNT0339800.1	6	asv6-1	Physiological trait	Eating quality	RM3	RM217
Osa06LNT0339800.1	6	tgw6.1	Physiological trait	Source activity	RG264	RM3

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