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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Summary
Sequence
Coding Potentia
Genome Browser
Expression
Variation
Sequence

>Osa07LNT0391300.2

ATTAACATCCATGTTACTAACAAGTAAGCGTGCTGTGAAAACCAATGCACATTTACACAAGACATTCTGGACGCGATTGTACACTACAGGCAAGAACAGCAATCGACATGATGGCCAGAAAGTATATCCTATTATGAGTTTTTACCTGCGTTGCTTCGGCGCAATACTGCAGATCAAATGTCATACTCCTTCCATCCCGAAAGAACTCAACCTAGGAGGGGTCACATCCCCTCTTGGATTCTGTCCAGATTCGTTGTACTAGGAGGGGTCATCCCCTCGGTTGAGTTTTTCAGATTTTGCATCGAAGTGCTGTCAATGGCGGAAAGTTCTCACAGCTTGGTCAATTCTTCTCCGGCAAAGTGGACAATTCGTCAAATGAGAAGAGCAGTTCATACAGCAGCACATGTGGCCACACGGCACAAAAACAGCATTATATTCCTGTTCAAGGCATATGACACATATGTCCAAGACCAATTGATCCTTTTTATTGTTAGAATCTACATCTGATGTACCATTGCCCCCTTCAGCTTCTCTAGCTTGTCTTTGTGCAGCAGCAGCATGAACCCTCTTCTGTAATTCATGTCGTCGTTTTCTTTCGAGAAAATGCTGTAGTGCACGCTTTGCAAGAAGAAAGACACCAAATGCTGCAAATCCCATGGAAGCAAGCTGGTATAACTTGGCCCATTTCCCAAGATTCATGATAAGTTGATCGATGCTTTTCGGGGATACATAAAATGGTCCTTTGTGTGGTCGCTGAATTCGAATAGTTCCAACATCATCTTTAATGGCCTCACCAACAACAGTCAATGAAGTTCCAGTTGGAAGAACCCTTTCAGTTCTCTTGACTCCAAGCATCTTCAGCCCTTGTAAATAGTCTAGAGTTCCACGCACAAGTGTCCGCCCTGACTCCTCAAAAACTTCGCTAGCAACAGTTAAAACTAACCCAGCTGCACCACGAGCTCCAACAACAAAAACACGGCCGGTACCATCATCCAGGTACCATGGAACTTCTTTGCTAACAGAAAGCATCACAGCGGAATCTTGAATCCATGATCCAGCATCGTTGTGCTTTAGGAAGTGTTGTTCTGCCGTTTCCTCTACTATTACACCTCTCATGCCACTTTGTTGGCAGATAAGTGGTGTATCTGAACCAACCCGTCCAGAGACTGCCACTACAAGTGGCAGGACCTTACTTGCAGTGTCCAATATAGCAGCCAAATCCTTCGTGCTTCCGGCCCTCGCCACCGATCGCAGCACCTCCGCATCCCTGCCGCTGCTCCTCCCGAGGAGATACAGCGCCGCGGCGCTGAGGCAGCACCCGACTCCGCCCCATGGGATCAACATCTCGCAAGGAATCGCCAGGCGAGCACCGAATCCGGGGGGGGGGGGAGATCAGTGAGGAGGAGGACGACGAGGAGATGAAGCCGTGAAATTTTATTTTTATTTTCCCCCCTTTTTCGCGGCGAGGGAAGAGGAGGAGGCGGCGGGGAGGGGGACCGGGAGGCAAGCAAAGAACAGG

Coding Potentia
Explanation CPC Score
noncoding -1.16604
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0391300.2 7 27052743 A G
Osa07LNT0391300.2 7 27051998 G A
Osa07LNT0391300.2 7 27052693 G A
Osa07LNT0391300.2 7 27053899 T A
Osa07LNT0391300.2 7 27054511 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0391300.2 osa-miR399a Cleavage 4.5 15.455 1 21
Osa07LNT0391300.2 osa-miR399b Cleavage 4.5 15.455 1 21
Osa07LNT0391300.2 osa-miR399c Cleavage 4.5 15.455 1 21
Osa07LNT0391300.2 osa-miR399d Cleavage 5.0 15.455 1 21
Osa07LNT0391300.2 osa-miR399j Cleavage 5.0 15.455 1 21
Osa07LNT0391300.2 osa-miR159f Translation 4.5 18.618 1 21
Osa07LNT0391300.2 osa-miR167e-3p Cleavage 5.0 20.709 1 21
Osa07LNT0391300.2 osa-miR167i-3p Cleavage 5.0 20.709 1 21
Osa07LNT0391300.2 osa-miR1428b Translation 5.0 16.8 1 21
Osa07LNT0391300.2 osa-miR1428c Translation 5.0 16.8 1 21
Osa07LNT0391300.2 osa-miR1428d Translation 5.0 16.8 1 21
Osa07LNT0391300.2 osa-miR2118c Cleavage 4.0 16.365 1 22
Osa07LNT0391300.2 osa-miR2118q Cleavage 4.0 16.365 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0391300.2 7 nan Physiological trait Eating quality R1245 R1789
Osa07LNT0391300.2 7 qPLLN7 Physiological trait Sterility RM234 RM172
Osa07LNT0391300.2 7 nan Resistance or Tolerance Other soil stress tolerance R1245 R1789
Osa07LNT0391300.2 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0391300.2 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0391300.2 7 hd7a Physiological trait Flowering RM18 R1789
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