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

>Osa02LNT0141500.1

ATGCATCTAATTTCTTCATATAAAAAAAGTACTTCACTACACTCGAGTACCTTTCGATCGAGCAACATAAAACATCTCAAATTAATTACAGCTTTTTGCCACCCATTGGCATCTGTGACTGTCAAATGTCATGTCAACTTGTCTGAAAATTCCTTTTTGTCAGATGAACACACAGAAACAGCAGCAGTGACAGTTTTGCTATGCTAATAAGCTAGATCAACCTCAGCTGCGGCGGCTGTCTGCTGCCGCCATGGTACGGCGAGCAGAAGAGCTCCATCTGCGGCGGCGGTGGCGGCGGCGGCGCAGGCAGCACGGCCACCGGACGCAGGGAAGAGACGTCGTGGAGCCGGCTGCTGTGCTGCCACGCCGCCGACACGGCGGCGGCGGCGGCGTCTGGCCTTGGATGATGGTATTGAGGGAATTGAAACTGCCACATCTGCTGCTGCTGCTGATGCTGATGCTGATTGGGCATGAGCTGCTGCTGAATCTTCATAATGGCTGGGTTTGGATTGCACATGTACTGTGGCATCTGCTGTTGAAGTAGTAGTGCAGTGTGCGTCAAATTCCCCCTGGTGTAAGGGAGATGCTGAATTGGATATGGCATTGCACCGCGGGGAGCGATCGGGGGATGTAAATACTGAACATGCTGCACCCCTGATAACGCCGCAGAAGTGGGCAAGTTCAGAAAATTACCACTGACCATCTTTTGTCGGGCAATGGTCGTGTCGCAAACACTGCAAGATGGCTGAACAGGTAGCCTTACATCGAAATGCAAGGCGTAGAACTTCTCGTCTTGTGCACCATTCTTACTTATGGTAGAACCGTCTGGAGACCTTGAAATGTGACTGTGACAAACTTCCTCAGGTTTTACCCGGTTTTGTGATGCCTTCTCTTTGTCCAAATGCATTTGGATGAGATGACACATGTAGACATGGGTAATGCTTCTCTTCCATGTCTTCGAGGGGGTACCATTTTTATTAACGAGGGAAAGATTCTCATGTTCTCCAGTTCCTTTCACAGTTTCTGCGGCAGTATTATTACACGACGCCAGTGTGTTTGAAGATGGCCTATGCGAGGCACAAGGTTTTGAAGTCTGGACCGGTGGCACAATTTCTTGGGCAGTGTTATTCTTGACATTTTTCCTGTCATGTTCCAGAATATCAGGCTTCTTAGAATTTTCCAGGCACCGAGGGGCTTCTATCTTTGTGGGATGAATTGTACTATTATCAAACTGCACTTTCAGTTGCTTCCGACTGTTATTGTAGTCTTTAGATGGGCTCGGTAAATTCGTTACAATTCCCAAAGAAATATCATGTATTTGCCCATCATTTGACAAAGTTGGATTTGTGTTGTTGCAGGTACCACCACAAGGCACATGATTTATTTGTGAAACATTGCCAGTTCGTTCCACTGGTTCATCAAGGGCAGGTTGGTTAGCTACTTCCGTACCGGCAGTTGGCAATGCCGATATTTTCTCATCCACCTTTGTTGCTCCTGCTGAATAAGACACTGAAGTAACATTTAAATCTAAGTTATCTTCTGCCATTCCTCTGTCGGACGACAGTTCACAAAGATGGGGTATTTGAGATAAAGATAGCAAAGCATCCACAACTACCTCCTCCTCCTTCGAAAAATGATTCGCCAACGGAATTGCATTACATCTTGTTTCTCGATCCATAAGGAAAGTCTGAGAGCTGATAGCTGAAAGATGGCGCCTCTTCTTGACATGCCGCGGTGATGTAGAAACAGTTTGACTGGCACGTTTATTTATGGCTGATCTTAATTTTCTAGGAACCGGTGGATCAATAGCATCACAATCCTCAGCCACCTTCCCAAGGCTCTTCACTCTCTTCCTACTAATCAGACTGCTGAAGCTAGCTGTGGTCAGTGAGGAGAGCACTGTATCATCGTAGTCTCCATCAGAACCTCCTTCCTCCCCTTTCATGTCCATGTCAGTGTTGCTTAATCTCCACTTCAAAACCTTTGCCTTTCCTTTCTTCTGCCTAGATATCAGGTTTAGATCTCCACCTTCACTCATATTTTTGTTGTTGTCAGCAGCAGCAGCAGCAGCAGTAGGAGAGGAGGAAGAGGAGGAGCCACTCCTTATCATGTGTCTTCTTGTGAGCCCAGCCACCAGCTTCTCCCTCTTCTTCTCCATATCCACCATCCAAAAGGTTATATGCCCAAAAGATCTCAGAAAATCTCCATCTCCCTTTCTCTCCTCTCCTCCACACTTACCATAGGCCTACACTCCAGTCATATGCCTATGCACCGATCCATCTCTCCCTCCCTCTCTCCAAGCTTCTTGATCAGCAGCAACAGAGAGAGATAAAGAGAAAGAGAAAGAGAAAGAGAAGATGCGAGATGGAGATGGAGAAGAAGGCGAGGAGGCGAGCGAGCGAGGGAGAGAAGGGATGAGTAAATGCGAGGTGGAATGGAAGAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.693444
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0141500.1 2 1127164 A G
Osa02LNT0141500.1 2 1131147 A G
Osa02LNT0141500.1 2 1126360 T C
Osa02LNT0141500.1 2 1127021 C T
Osa02LNT0141500.1 2 1127562 A T
Osa02LNT0141500.1 2 1128552 C T
Osa02LNT0141500.1 2 1128871 T C
Osa02LNT0141500.1 2 1129600 A C
Osa02LNT0141500.1 2 1129849 C T
Osa02LNT0141500.1 2 1129988 T A
Osa02LNT0141500.1 2 1130173 T G
Osa02LNT0141500.1 2 1132456 T C
Osa02LNT0141500.1 2 1132403 T C
Osa02LNT0141500.1 2 1130456 A 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
Osa02LNT0141500.1 osa-miR5534a Cleavage 5.0 21.088 1 21
Osa02LNT0141500.1 osa-miR5534b Cleavage 4.5 21.088 1 21
Osa02LNT0141500.1 osa-miR1861o Translation 4.5 14.566 1 22
Osa02LNT0141500.1 osa-miR166k-3p Cleavage 4.5 21.233 1 21
Osa02LNT0141500.1 osa-miR169p Translation 5.0 15.277 1 22
Osa02LNT0141500.1 osa-miR1432-3p Cleavage 4.5 24.748 1 21
Osa02LNT0141500.1 osa-miR1861a Translation 4.5 14.566 1 22
Osa02LNT0141500.1 osa-miR2055 Cleavage 4.5 14.174 1 21
Osa02LNT0141500.1 osa-miR2097-3p Cleavage 4.5 4.63 1 22
Osa02LNT0141500.1 osa-miR1862f Cleavage 4.0 22.44 1 20
Osa02LNT0141500.1 osa-miR1862g Cleavage 4.0 22.44 1 20
Osa02LNT0141500.1 osa-miR5487 Translation 4.5 12.033 1 21
Osa02LNT0141500.1 osa-miR166l-3p Cleavage 4.5 21.233 1 21
Osa02LNT0141500.1 osa-miR2105 Translation 3.0 15.86 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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