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

>Osa10LNT0071700.1

GCACGTTAATACTCCAAGATTTCTTGAAATGGTAAATTCCTAGCAAATTCATTTACAGTTTTGCAATTCATGTTCAAGTTCTGGATTGAAAGCTGGCATTGGTAGAGAGACTTGAGACATCACATATGTTTTCACTCAGCAATTGGACAAAAAAAAAAGGTCAGGTGAAGTTGCGAAAAGCACCACCTGCTTGATGGTCAAACATCAATCACCACCTCAACTCCACTCTGTAGACTTGACTGATGCTAAGATGATAAAGCTAAAACTGTCTCACCAAATTCATATGGTCCTCATCTTGCACCTACGGATCTCCTTCACCACCAATGTCCATCATCTGCCCAAAAACGTCCAAAGAAAAACATTCATATTAGTGCAAACCAAGAGAATAACCAAGTGCTGTCAGCATCCAATTAAGTAATCAGCAGTCGTACTCAGTACTGTTCTCAGCTACCACAAAGTACTGCGAGAGAACAAGGCACTCTGCGGTTCATCTCTTTTTCCAACAAGAACCACACCAAAAAATACATCAAATAAATGAACCAGATAAAATCATGTTAATCTTGTATCATAAGCCAGGCCCAACGAAAGTTAGGACTCTTTGGCACGGCTCCAACCTCTAGCTCCTAGCTTCTTAGCTTGACCATTGAAGTTGGAGATGCATTTTCTGAAGTTCTTTTTGAGGCAAAGTTTTTTTTTTTTTTTTTTTTTTTTGAAGTTTGCACCATAAAGAACAGGCTCTTAAAAACCAGAACAAATAAGCATTATATGGTTAGCCTTGACTTGCGAATTCTGCCACAAGGACAACAAACGATTCTCTTGATGTATTACGACTCCATCGCATCTGAATCCTCCTGCAATAACGCATTCAAAAGAAACAAATGAACAATGTGCATGAAAAAAGTGCCCCAAAATTCAACCATCCTTGCATGTCCATTGGTTTCAATCTTAATTGATGTGAAAATGAAAGATTCTCCTTTGCTTTCAGGTTATCCAAATCTCTAAGCATTTGCTTGGGCATGTGTATTTGGCACAGCCCCTTTGGATGAACAGTTAAATGAATTGAAAGTTCCAAAAAGGGATTGGCTTTAATCCCTCTGCATATTGAAAATTCTAAAGTAGAATGGTTTCACCTTAAATTTAAATAATTTACCCATGTTTTAAATTATGAACCTAGAACCCTTTCTCTACCTTATATCAGGAGTATCATGCTAACTGCATCCCTCAAGTAGAACACCAAAGAGTGCCAAAGGTCAGCAAAAAGGGACAAATACAGTTGATGCGCACTGCTCTCTGTAAGAGGCAGTAAAAAAGCACTGGTACGTAAGGCATAAACGTCAATGATAAACTAGCTACTCTTAGAGATACCATATACTCCCTCCGTCCCAAAAAAATAATCAACCTATAAAGGGATGTAACCTCTTATAGGACAATGTATCTGAACATACCCTATGTCCAGATACATTGTCAGGTTGATTTTTTTTTTTTGACAGAGGGAGTATGCTATAAGTTAAGCAAAAGATATTCACTTCATTTTGTACAGTAAAATTACTGAAAGTGCATTGAGGTTACCAGCGAGGGGTCATAGGCAGTTAGGCACAACTTTGACCATCTACCTTCGCATGGTGTATTCGATACATCCAGGATCAAGGATGTAAAAGTTTTGAAATTCAAAAATATTGTCTTGGCCATTTAGTCCTCTGATGGTGGAACCCTTTTGGATCTCAATATTGGCACTCCCACCGTTCCATCAAACTTGATATATGCAGTTTTTCCCCCCATGAAGTTTAGTATCTGCCTTAGTCTTACATGTATTAATTGTTCCACATTTATCGTGGATTTCCTTAATTTGAGGTTGATTGTCAACTTTGCTCTTCTTGCCATGCAGCTTATATCTGGAACCCTTGGCGGCGGCGGCGGCGGCGCCCGCCATGATGCCCTCGCCGCCGGCGTCCTCCACCGTCTCGGGTTGGGCGGCGCTCTCTCCTCCCACCCCCACGTCGCCCCGATCTGTCACGAACCAACACAATCACACCAAATCTCTCACACACAGTGCCACCAATATATTGCAAATCCACTCAAGAATACAAGTGCCCAGGGATACAATCAAGAGAGTAGAATCAGGGATTGGGAAGAGCAACATAGAGAAGGCAGAAGCATGAGACTAGGATTAGAGAAATAGAAATTAGGGGAGGCAGAGTTGGAGGAGGAAGAGAGCCATGGCAAAGCCAGATTATATTTCTGTTCATCGATC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.871448
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0071700.1 10 14869236 C T
Osa10LNT0071700.1 10 14869626 T A
Osa10LNT0071700.1 10 14870505 A G
Osa10LNT0071700.1 10 14871708 G C
Osa10LNT0071700.1 10 14871757 A 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
Osa10LNT0071700.1 osa-miR5796 Cleavage 4.5 13.711 1 21
Osa10LNT0071700.1 osa-miR5817 Translation 5.0 11.469 1 24
Osa10LNT0071700.1 osa-miR7692-5p Translation 4.0 16.584 1 24
Osa10LNT0071700.1 osa-miR5079b Cleavage 5.0 14.321 1 22
Osa10LNT0071700.1 osa-miR5079b Cleavage 4.0 11.455 1 22
Osa10LNT0071700.1 osa-miR1439 Cleavage 2.5 10.23 1 21
Osa10LNT0071700.1 osa-miR1869 Translation 5.0 13.139 1 24
Osa10LNT0071700.1 osa-miR5079a Cleavage 5.0 14.321 1 22
Osa10LNT0071700.1 osa-miR5079a Cleavage 4.0 11.455 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0071700.1 10 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0071700.1 10 nan Physiological trait Sterility C701 C16
Osa10LNT0071700.1 10 nan Resistance or Tolerance Drought tolerance RZ892 BCD386
Osa10LNT0071700.1 10 qSPB2-1 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0071700.1 10 qSPBp10-2 Morphological trait Panicle/flower C1633 RM239
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