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

>Osa10LNT0059400.2

GATTCGTTATGCAACAAAGATGACATATATAGCATCATATACAAAATTTTCTTTCGAATTTCTCCTCAAATTGCACTCCATGAGCAAATGGGAGGCTCATAACATACAAAAATTGATGCTTAAGCTCTGACCAAAAAAAAAAAGCATCATAATTGGTCCCGCTGCTCTAATGACGCCGTAGAGAAGATGAAGTTGTGTGGTGAGTGCAGTTTTGCTTTCAGATAGCTACAATGTTCAAAACTATTTGATCTTGAGCATCACGCTGTCGTGCAACATTTCCAAGAGCATAGCACTTACTCAAGAATATAGCCTGTGTTTGGAAACTCCTGTAACCACTTGGACAAAAAGAAATTTCAATATCTTCAGCTATCTACTTTTAAGATAACAGAGATCTTGTAGCCAGCCTACTTTGCGACAACATTCTGCTCCTCTAAACCTCCAGTTGCCTTGGCATGGGCAACAGAGCTACCACCATCTGAACTCCCATTGCACTTTGGCTTAGCTTCAGCCATATCATCTTTCCTTGTTGGTTTGGAAGAAACACTACCATTAGCCTTATGTGCACGAGCACTTACACCAGATGAAGAGGCAGATGATTCTTGTGGAAAAAATGGTTTAGCATCAGCATGTTTTACGCCCAACTTCTGAGCTGGGGGTGGATTGCCTGATCCAGGAGGAAGGAATACCCCTGTACCCTGAAGAGGTAAACGAGGTGAAGCGGGCCTGGGAGCAGCTTCTGCGATCCATGCGGCTGTACTGTTTGGCAATGTGACAGCTGATGCAAATGGAACAGCTTTTGGAGTGATAGGAAGTGGTGCAACGAAAACTGTCTGGATGCCATTGGATGGAATATGGTGAAGTCCAGGGGTTGAAACTGCAGGTACTCTATTGCTAGGGTTGTAGACAAGCTGTTTAGGACTTGAGGGATGAATTGCTATGTTCCCTGGCCTCAATGGTGCAGCCCAAGGCATCGGAGGAGGTGTCAATGGGGGAGTGATAAGCAAGCTGCTTTCCGACTGAACGTGCTTCCTTGACACAGACTTCCCAAAACTTAGTAAGATACGCTGCTTACTTGTAGCAGGGAGTGCCCGTTTTGCTATATCAGCGCTCTTTCCCTCAAAAACTAGAACAGACCCTGTAGAGAGTGAGAGTTTCAGTGGACCTGCATGATCGCCTCGGCTATCTGCTGCAATAACATGGCCAAATACCATGTCGCAGTCAGTCAGGCAGAGTGTACAAATGGGTCTACCATACCAAGGAGGATGATGATGAGGGTGAGAATAATCTCCCTCATTGAAGATATCGATAACACAGTAATCTGGACTGGAAGGGACAACTTTCTGATGAACCAAGCTATCAAACAGATTTTGAAGCACACCAGGAATAGGATCCACCTTTACCTCTCTTAAATGTTCATCTTCAGGAGGGCCTTCTGTGATGGGAAGACCAAGCTGAATAATTTCTCTTCCATGACCCTTCATTGGCCTTTTGGCAACTACAACTGTTTGCCCTGCTTTTTATCATAGAATTATATAACACAGCACATTTTACAAAGATGCACTGTGAAGGTCAGACAGGACACTATCTGCTGACACTAAAACGAAATGCTGGAGGCAGTCACTATGATGCAGCAAACAACATATTGTCTAACTTTTCAGACCAGCGCAACCCCATACAGAAAACAAAAGGGGGAATGCTTCTTCCATAGGGTCAATAGACCATAAAGGAACTCCTAAGGCTAAGATGAAAATAGACAAAGTTGCGACGATCCCTATGGTTGCATAATAAGTACATACATACATATCCAAAATCATTTTACATAAATAGGGGATCTAGTGTAAATAATTTGATAAAACCCGACAATACAAAAGAAAAATGGTGACCGTGCATCTCCAACTCAATAACCATATAGAGCAAAGGAACCAACAATGCCGTACCTTCCAGTCCTGGTTTACGCCGCATAGTCTTAGCTTCATTCACAAAAGAAAGAACCTTTCCTATCTCAGTTAGATCTACATACCCTTTATACAACTTAAGCCCCTCTAGAACATTCACCATCCTGCCATCAATTACTTCATTAACCACAAAGCAAGTTGGGACTGGAACCACATTACTGATTACATGAAGTCCTTTCTGAGGTTGGGCTTCTGTAGCATGTGAAATATGAGAAACCAACTGAGAATTCTGAGTTGCTTCAGCCGATGTCTCCACTTCCTTCACACCTCCACTGGCAATCGCAGCATCATCTCCCTCGGCACCGGCGCTACCGCTCGGGGGGCGCGGCGGCGGAGGAGGAGGCGGCGGCCCCTGGCGCGCGGCGGCGTGGTGAAGCGCGAGGGCGACCTCGGTGACGGGGAAGTAATGCTGGAGGTGGAGGACGGGGGCCCAGTGGTGCCGCCTGCGCTGGACGGCGGCGGCAACGGCGTCGAACCCGGCGGGATCGGCGGCGTCGCGGGCGTGGGCGAGGAGGAGGTCGATGATGGCGTTGGCCGCCGCGAACTCGCCGCGCAGCCACGCGACGAGGCCGTCCCGGCCGTCCACCACCACCGCCTGCTGCTGCTGCTGCGGCTGCGGCTGCGGCGGCGGCGGCACCACCCACCCCGGCCCCGGCGCGGCCATCGTCGGCGGGCTCAGAGCATGGCGGGGCAATCTGCTGCTAGGGTTTCGCCAATTCTGATGGAAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.547584
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0059400.2 10 1086700 T G
Osa10LNT0059400.2 10 1085999 C T
Osa10LNT0059400.2 10 1086050 C T
Osa10LNT0059400.2 10 1086550 T C
Osa10LNT0059400.2 10 1086867 T C
Osa10LNT0059400.2 10 1086868 A G
Osa10LNT0059400.2 10 1087212 A C
Osa10LNT0059400.2 10 1087421 G A
Osa10LNT0059400.2 10 1088073 T C
Osa10LNT0059400.2 10 1088323 A G
Osa10LNT0059400.2 10 1088453 C T
Osa10LNT0059400.2 10 1088772 T C
Osa10LNT0059400.2 10 1089423 T C
Osa10LNT0059400.2 10 1089490 A G
Osa10LNT0059400.2 10 1085900 T 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
Osa10LNT0059400.2 osa-miR5835 Cleavage 4.5 13.989 1 24
Osa10LNT0059400.2 osa-miR6247 Cleavage 5.0 22.853 1 21
Osa10LNT0059400.2 osa-miR5512b Translation 3.5 15.958 1 21
Osa10LNT0059400.2 osa-miR414 Cleavage 1.5 22.056 1 21
Osa10LNT0059400.2 osa-miR1853-3p Cleavage 5.0 10.293 1 22
Osa10LNT0059400.2 osa-miR1861n Cleavage 5.0 22.173 1 22
Osa10LNT0059400.2 osa-miR1865-5p Translation 4.0 17.367 1 24
Osa10LNT0059400.2 osa-miR2100-5p Cleavage 5.0 21.698 1 22
Osa10LNT0059400.2 osa-miR2863a Cleavage 3.5 12.084 1 21
Osa10LNT0059400.2 osa-miR5157a-3p Cleavage 5.0 15.83 1 24
Osa10LNT0059400.2 osa-miR5157b-3p Cleavage 5.0 15.83 1 24
Osa10LNT0059400.2 osa-miR5512a Translation 3.5 15.958 1 21
Osa10LNT0059400.2 osa-miR390-3p Cleavage 5.0 24.491 1 20
Osa10LNT0059400.2 osa-miR529b Translation 5.0 13.237 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0059400.2 10 hwd1 Physiological trait Lethality nan nan
Osa10LNT0059400.2 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