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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa08LNT0422000.1

CAATATTCAGAAGAAAAAATGAGGTACATTATTGATTATTCAGATTTAGTACTAGCATATGCGTGTATCAGTATTCAGAATGTAGCTAGCTAGCATCAAGCCACAGAAGAACAAAAATCAAGTCTCAAATCTATTTATCAGGGTACAAAAGAGTACAACATCAGAACGAATCTTCGTGTAGCACATCACAAACCAACCATCCATCCATCCATCCAGTGTGCATTCGTTTCTTGCAGAGTAAAAGCTGAACGACGTAGAGATCAAGAGACAGAAAAGATTTTTTCCCAAAGAAAAATGGGTGGGTGACTAGCTTGTTTCACGGATCAGAAGATGGATGAGAAGACGGCAGAAACCATCGCCGCCGCGACGACGCCGTAGCTGAGCCCCGCCTGAACCTTGAAGCCGCCGGCGGTGGCCGCCGCCGCCCCCGGGGTGGTGCTTGACGGCGTCGTAGCCGCTGCCTTGGAGGCGTTGGCGAAGACAGCGTAGTCCGGTGAGCTTGGGGTCAGGTGCAGCAGGTCTAACAGATCAAGACATCATCAAACATTAGAATTGCATCATCTCAAAAAACAGAATTTGTTGATATAAAACATTGTCAAATTACGTTTAACAGCATGGTCACATAGAGCAAATTACACATGATCAACTGATCAACAGTCTGCTGCAAGCATGAGCACTCATGACTGAAGATTTGACAGACAAAAAAAAAGGTTTAAATACTACTAGACTCATGAGGGTGTGTTTGCTAGAGCTCCAACTCCTAAATTTAACTCCAGAAATTAGGTCTGAAGAGGAGTTATAGAGCTGTCTAAACCTAGCTCCACCTCTCAATTTTGTGAGAGAGCTCCACCTAGTTTTGCTCCCATTTTAAGTGGAGCTGAAAGACTGAAACTGTTTGGCCGAGCTCCAGCTCCACCAGCTGACCCTCGTTCCAAGAGTAGGGGAGATTGGGAGAAAAGTAGAGCATGGGCTGAATCTTGTACTAGACCAGAGCAGAAGCAGCACGGCCCAACACGCACGAACGCATGGCCTGCTTGGCAGATCAGTTTCTTCTCTCTCTCTCTCTCTCTCTCTCTTTTGCTTGGATCTTGAGTTCTAAACTCTCTAGTTTACCGAGCAAAAGGCCAGTAAAAAAAAACCATAAACTACTATCCTCTTCAATTTTAATGAATCTGGAATTGCTATCATAATATTCCTGTTCTGCCACAAGGTTTTTCTTGGGGAAATCGGTGAGATTCTTAATTAGAACCTGTGAATCTGTGATTCACTTGAAAAAAAATTCAACCGATTCACTACACAAAACATAGTAAAAACATAAGGTGAGAACCTAATTAATTGATCTAGAAATACATAAGTTAACTAATTCTGAATAGGAAGCATGCGTGTCATGTTCTTGCCTAAAACTGAACAGTCACATGCAAAAAAAAAAAGTAGTATAGTGAACAGTAAATGATGTTTGTTTGTTAGGAAGCGCATTTGGTGTATGAGCGTGGTGTGTGCGTATGCGTCTTCCGTGTAATCTACGCGTATATCTTTTCGCTATGCTTATGTTTATCAGTCAAAATTTAAATTTTCAACCTTAAATTTAGAGCTGATTTAAAGGTTTTTTCATCGAAATTTATTTTTCAGCATTTGCTTTTAAATCGCTAAGAATATGTACATAAAAGTTTTACTCATAAATTACTTTTTATTTGTAAATATGCCATAAGCGAAACGATGGCTCGGTAGAAGAAGAAGAAGGAGGAGGAGGAGGAGGAGGAGGTGGTTACTGATGCAGAGGGAGACGTTGGCGTTGGGGAGCTTGCAGGCGGTGGGCATGGCGAGGAGGCGGTCGAAGCGGAGGCCGAGCGACTGGACCTCGTTCCGGCCGCCGTGCACCTGCTGGATGATGTAGCACAGGCACTCGGGCCGCGCCTGCTGCGTCGCCGACATGTCGCCGCAGCACGTCGACGACGGCGCCTCCTCGTGCCCCGTCGCGTAGTCCATGCAGTCCGTCAGCTTCGTGAAGTCCTGCTGGCATTTGCTCTGCAGCGCCGCGTCTGGCGCCGCCGCCGCCGCCGCCACGCACCACGCCACCACCGCTGCCAACGCCAGACCGCGCCACGCCGCCATACCTCTCGCCGGCAGCTTGGTTGGTAGCTAGTGGGCTAACTCGATCGAGCTGTGTGCAGCAGGTGGTGTGGTGTGAACGACGGTGGCGAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.677749
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0422000.1 8 26556448 A G
Osa08LNT0422000.1 8 26556476 A G
Osa08LNT0422000.1 8 26556389 T A
Osa08LNT0422000.1 8 26555699 A G
Osa08LNT0422000.1 8 26554725 T G
Osa08LNT0422000.1 8 26554478 G A
Osa08LNT0422000.1 8 26555619 C T
Osa08LNT0422000.1 8 26555938 G A
Osa08LNT0422000.1 8 26556141 A G
Osa08LNT0422000.1 8 26556433 A G
Osa08LNT0422000.1 8 26556496 C T
Osa08LNT0422000.1 8 26554710 A T
Osa08LNT0422000.1 8 26555592 T 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
Osa08LNT0422000.1 osa-miR1425-5p Translation 4.5 18.729 1 21
Osa08LNT0422000.1 osa-miR2101-5p Cleavage 3.0 14.855 1 22
Osa08LNT0422000.1 osa-miR2873b Cleavage 5.0 9.013 1 21
Osa08LNT0422000.1 osa-miR5076 Cleavage 3.5 23.458 1 22
Osa08LNT0422000.1 osa-miR5490 Translation 4.5 15.822 1 21
Osa08LNT0422000.1 osa-miR5490 Translation 5.0 15.653 1 21
Osa08LNT0422000.1 osa-miR2100-5p Translation 5.0 22.541 1 22
Osa08LNT0422000.1 osa-miR2118q Translation 4.0 22.321 1 22
Osa08LNT0422000.1 osa-miR1856 Cleavage 4.5 23.451 1 21
Osa08LNT0422000.1 osa-miR2118c Translation 4.0 22.321 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0422000.1 8 nan Physiological trait Source activity RZ66 RG598
Osa08LNT0422000.1 8 Grh5 Resistance or Tolerance Insect resistance nan nan
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