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

>Osa02LNT0141900.1

CAGGAAATGAACTAAATATAAACTGTCTTAATGTCTTACCACCGTGCCACGGTTGACAAGTACGTACATGTCTAAGGGCATCAAGCATGACGAGTAGAATTTACATTTTCCAGACTTCACTACAGTTTATGAACAAAGTTCAAGCCCAAAATCTGTATAATACAGCATGGATGCCTCTACCTACATCTCTGGTTTATTATAAATAGCTGAATTCTTTGGTCTTCGCACCGTTCCTTCCAACATCTCTGGTTTTTGCAATTTGCATTGCCCAGATTGCCTACTCCAGTTTGTGAAGATGTCAGAAGAGGATATCCGGAAATTATGCACACATCGCCTTTCCAAAATTTTGTACATGACACAGTTTTCATTTGTCCAACGATGAAATGCCATATATCAGATAGAGATAGGCCTGCAACTCTCATGCAAATGAATGCTAGCAAATCGTGGCATGCAGGTCTGCTAGTCTGCTACTGCTTCGAAGTTGGAACTTGGAACACAAACATCAAGGTCATCCATGCAAGGGCACTTCAAAATTCAGACAGGTACCATCACCACTATTGTTGCAACTGAAGCCTGAAGGCCGTGCAACGACTGGAGAAAATCGGGCGAGCACTGGCAGTGTCAGCTAACAGAACCTGCAGTCGGTAGTGATACTATGGGGACAAAATTTCTTAGGCGATATGCTTAGAGGGCAGCCGGCAAACCAACAGATAGTTCCATGAGCATTAGGAAGGCACCAAATATTCATGCTTTTGTCAAATGATTGTGCAACCTCACAAAATCATCCAACAACAGATCAGAAGGTCTAGCTGTAACTGGAAGACCAATGTTGGCCAGAGCAGCCTCAATCTCAGAGGAAGAACACAGGTGCTGGAGTGATTTACGAAGCATCTTGCGCTTCCCATTGAAAGCAGAGTTCACCATTGAAAAGAAACCTTTGTGAGAACCAACTGGTGGATAATCCCCTGAATTCTTTAGCTTAAAGCTTATAACAGCACCATCAACCTTCGGTTGAGGGAAAAAATTTGTCCTCTCAACTTTGAACTTGTATTCTGGTTCTGAGTAGAAATTCACAAACACATTGATAGGTCGGTACTCTGGTGTTTGTATTGAAGCATCTGCAAAGCGCAATGCCGTTTCATCCTGAAGCAAAAGCACCATGACAGAAAAGACATCTCCCATTGGGAGAAGAAGTTTGACAACTTCAGTACTTACATTGAATGGTAAATTTGACACCACCTTGGCATATTTTCTCGTGTGATGGGATTTTTCCTCCAGGAAAGGAAGAAAATGGGAGCGGACATTAAATTTTGTGATATCTTCTTCAATGATCTTCAATTGTTCTGTGGATCCAAACCTATCATTCACAAGGGTGGCCATATGCTTATCCTTCTCTACGGCGAAGACGGTGGCGCCGGCATCGAGGAGAGCGGCCGTAAGAGACCCAGTCCCCGGGCCGATCTCGAGCACGACGTCCCCCTCCTCCACCCCCGCCGCCGCCACCAGCTCCTCGTTCACCTTCGAGTTCAGCATGTAGTTCTGGCCGAGGGATTTGCGGGGGACGTGGCGGCCGCGGGAGTTGAGGGAGCGGATGGTGGAGTGGTAGCCGTCGGTGACACCGGAGGCGGCGGACACGACGGTGGCAGGCCGGCTCCGGACGCGGTGTGAAGGGGTAGCATGAGGCGGCGGCGGCGGAGGTGGCCGGCGGCGAGGTGTGGCCGGAGACGGGGAAGGACGCGGTGGCGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.675818
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0141900.1 2 1198771 G A
Osa02LNT0141900.1 2 1198303 G A
Osa02LNT0141900.1 2 1198577 A T
Osa02LNT0141900.1 2 1199962 A C
Osa02LNT0141900.1 2 1200017 A G
Osa02LNT0141900.1 2 1200765 A C
Osa02LNT0141900.1 2 1201271 T G
Osa02LNT0141900.1 2 1201331 G A
Osa02LNT0141900.1 2 1199707 G 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
Osa02LNT0141900.1 osa-miR5542 Cleavage 4.0 14.1 1 21
Osa02LNT0141900.1 osa-miR444a-3p.2 Cleavage 4.5 24.991 1 21
Osa02LNT0141900.1 osa-miR395w Cleavage 4.5 15.579 1 22
Osa02LNT0141900.1 osa-miR444d.2 Cleavage 4.5 24.991 1 21
Osa02LNT0141900.1 osa-miR444e Cleavage 4.5 24.991 1 21
Osa02LNT0141900.1 osa-miR444f Cleavage 5.0 24.991 1 21
Osa02LNT0141900.1 osa-miR5145 Cleavage 3.5 14.393 1 24
Osa02LNT0141900.1 osa-miR5490 Cleavage 3.5 14.915 1 21
Osa02LNT0141900.1 osa-miR399k Cleavage 4.5 19.236 1 21
Osa02LNT0141900.1 osa-miR2878-5p Cleavage 5.0 12.979 1 24
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