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

>Osa10LNT0060700.1

GTCTCCGTTACCACCTAATACTACTACAGTGCTACGACAGCTTCACCCAGAATCTGATAAGCCGATGCCACTGCATCGAATTCTTCAGGTGAAACTGCACCGCCATTACACGAGTATCTGAATCGACGATGTTGGTACCCCATGTTTCTGAAATTTTGGATCAAAGAATACAATGTGTGACACAGATTCCATAACCATGTGTGTGACAGTGGTGTTTCATAACAAATATATAATTGTATGAAAAAATTAACAGTTTTGTGATTTTCTTATTTTCCACTGATACAAAAAATTGTTGCAGCTTGTTGATATATAACCAATTAACCATGCAGGTTACACATCCTTGATCTACATCCGGCGTATGATATGAACCTGAGCAGAGGTCAGTCCACTATTAACAAAGAAGGTGACCACATCTTTGACCAGGGGATCATCCTCCGAGCATACGATTTCAACACGCGTAAGGTGCTCACATGTAAATGATCTATCTTCAATCTTGCCAATGATTCTTTGTGTTTTTTCCTTTTCAATCTTTAGAGTTAGCTTCTCCAGTTTTGGTGAAGTCTGAAGGAAGACCATCAATCCATAGAAGTTTGCATCCAGACACCATTGACCAAGAGTCAGTCTGACAAGATTGTTGAATTTTGGGTACAATTGCAAATTGTTTTCCATTGTCAGCTCTTTCCCAATATAATTGAACTCCAAACTTTTAGCAGCAGAAAGGCTCCTGAGATTTTGGAAGAAATCACCAGAGTCTTGCACATGATAAAGTACCAGTAATGAAGTCACTAGTAATGGCATGTCATTAAACACACAGCTATCCACAGGCCTCCACAACTTCAGATAAGTAACACTCGGGGTCGAAATAGTAGTCTTGTCACTGGAGAACAGAGTGTTCTTGATGGTCAAAACCTTCAGTGTTTGGGAGGAGATCTCAACATCATTAACGGCGCATTCATCTAAGAAGAGACTTTCCCATGCTGGACAGCCCATCTCGAGTTGCTTGAAGAATCCTTCCATCAAAACAACACTGGTGAACTCAATTCTTGTGAGATAGCGGGAAGCAAACTCGGAGTGGTCGAGATACAATTTGTCACACAGCACAACAATATCCAGAACCCGTGCCTGCTTCTGCACAGCGTGGCTAATCCATGCGTTGATATCTTCAGGGTCCGAGATATCATCGAATCCTTCATCCAATTCAAATTTGCACCTGAACTGAAACGTGCTTATCAAGGCAGCAGGGTCACGGAGCTCCATCACCCTCTCCATGAACATAATGAACGCCAATTCCGTCTTTTCATCATAGTATCCTTCCGAGTCGGAGTCCCGCGTGAACTCGTCTATGTCGGAGTTGATGCAGGGCACGGAGCGCCAGAGGTTGCGCCACCGCCGCGACAGCACACACGTCTGCACAGCCTGGCGCGTGGTCAGGAAGGACATGATATTGAGAATGATGTCGTCCGGGACGTCGCTGAACCAGTCCCCGTCGTCAGTGTGCGCTGGGCCCGTGACCCCCCTGCTCTTGCTAGGTGAACCCTCCATGGCGGCCGAGCACGCGCGCAGAGGCGTTTCGTCGAACAGGTGGCGCGCGTGGAACCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.0590057
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0060700.1 10 1782057 T C
Osa10LNT0060700.1 10 1779816 A C
Osa10LNT0060700.1 10 1779843 A T
Osa10LNT0060700.1 10 1780474 T A
Osa10LNT0060700.1 10 1780532 T C
Osa10LNT0060700.1 10 1780543 C T
Osa10LNT0060700.1 10 1781538 C G
Osa10LNT0060700.1 10 1781546 A G
Osa10LNT0060700.1 10 1781718 A T
Osa10LNT0060700.1 10 1781726 A C
Osa10LNT0060700.1 10 1781805 T C
Osa10LNT0060700.1 10 1781881 A C
Osa10LNT0060700.1 10 1781892 G A
Osa10LNT0060700.1 10 1781934 G A
Osa10LNT0060700.1 10 1782033 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
Osa10LNT0060700.1 osa-miR5530 Translation 4.5 19.81 1 21
Osa10LNT0060700.1 osa-miR5530 Translation 5.0 17.709 1 21
Osa10LNT0060700.1 osa-miR812q Cleavage 4.5 14.549 1 24
Osa10LNT0060700.1 osa-miR1847.1 Cleavage 4.0 16.735 1 21
Osa10LNT0060700.1 osa-miR2275a Translation 5.0 20.961 1 22
Osa10LNT0060700.1 osa-miR2275b Translation 5.0 20.961 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0060700.1 10 hwd1 Physiological trait Lethality nan nan
Osa10LNT0060700.1 10 nan Physiological trait Sterility C701 C16
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