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

>Osa08LNT0417000.1

TTAATGAACAGTGTTTTATTCCAATCCAATCAACCAGGAACAGTAATGGAAAGAATTACAAAAATCTCAGCTATATATCGAAATGTGAGAGATCAGTCCTCTCAAAAGAAAAGGAGGGGTGATAGAAGGATCGAACGAACGGCAAAATGAGCCCTACGTGTGATCCTATCTGCATGTGTATATTTATTTTAGGCTACCAATCCACATCAGACGACAAATCCGCCGCTAATTAATAGCGTTTATGAGGGTAAGGCCGGAAAATGGAGATGTCTCTGTTGTTCACCGCCTGAAGGGGCCTCGCGTTGTTCTCCATTTCCTGCAAAGTAGGCAAATACTTGAATCTTCAGCTCAAAAGTTTTCAAAAATCAACCAAAAAGTTGATCTTATGTATATTTCTTCAGCATTTACACATGTTGAAATTTCAACAGTCTTCTTGTATTTATTTTCCATAGGTCTGCTGTTTGCAAGTCTACTCGTACTCTTGCTCTCTTAGTCAGACAACAGCACCAGCCTAAAGACTCTAATGCAGTCGTTTTCATATATGGTTTCAATACATCCATGAGTACATACTAAACGGATCAAGATTATTGACAATGGTTTGGGGTTCTTCACGTCAAAATCATAAAATTCGCATGCTTTTCAGATGGAAATTAAACTCCAGAAATTAAATTCGACCATAACAAGTTAAAGCTTACATCATGCACAGCTTCCCTGAGAAGGTCGAGCTGATACCTCGACACGGTGCGAACCTGCAAAAAGGAAGCAAAAGAACACATCAAAATTTAGAAAAACTGTTGGTTTTCAGCAAGGAATCACCACCTTAATTACTTTAGTTCAAAACAAGGAAAAGTATACTACTACATCAAGAAAGAAAGAAACTGGAATTAGATCAGGAACATGACACGACATGCAGTCCACCAAACCCAACCGACAGCAAAGCCACCCCACCAAGAAGGCAAGAATGTCTTTATCTCTTGCTTTTGTTTATCAATTCGGTCATGATCAAAATCATTTAAACTTCACAGAGAAGAAGGGGGAAAAAGGATTCCTGATGTCCAATAAATTTCATGTTTAGTCAAACCTACCCTCTTGACAATCGTCCAGACCACCCCCTGCGTGCAAGGCGGCGTGGTGAGCGACCCCATGTAGCGGTAGTACACGCTGGCCCTACCCCTTGCACCCCTCGGATCAATCATGCCCACCTTCTCCTCCCTGTCCTCCTTGTCCGCAATCATCTTGAGATATGGCTCCATCTTTTGGAGGAAGCGGTCGGGGCGGCCGACCTCGTAGAGGAGGCCGATCACGGCGGCCTTCTTCTCGGCGCTCTCGTGGACCATGTGCAGCTCCATGTCGTACCTGCGGCCGTCGACGCTGTGCTCGGTGGGGGAGTGCCAGTGGAGCTGGCGGAGGTAGTAGGCGGTGCCGTTGATGACGACGCTGCCGGCGTCGCCGTCGAACCTGACCATGATGTCGTGGCCGCGGTTGACGATGGAGGCCTCGGCGGCGCGGTAGGAGTCGTCGAGGTAGCCGAGGTCGCGCACCAGCTTGACCCGCTCGTGGGAGAGGTCGATCGGCGACTGCATCTCGCCGGCGCCGCACTGCGCCCACTCCGGCTTCAGCTTGCCCCAGTGCTCCGGCCCCTTCTCGTCCCCGCTGATGTACGTGAACTCCTCCTCGTGATCAGTTTCTTCCTGTGCTCTGGCTGCCGGGACGGCGGTGGCGAGGAGGAGGGAAGCGGCGGCGAGCAGTACGAGGAGGCGAGTCGAACCCATGCTTTCAGCTTTGGAAGAGAGCGTGTTCGTCTTGTTCTTCTCGAGCTGGATGGGGTTAGAGGATGAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.391062
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0417000.1 8 23117341 T G
Osa08LNT0417000.1 8 23118207 T A
Osa08LNT0417000.1 8 23119018 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
Osa08LNT0417000.1 osa-miR5544 Cleavage 5.0 13.856 1 22
Osa08LNT0417000.1 osa-miR5801 Cleavage 5.0 15.171 1 24
Osa08LNT0417000.1 osa-miR171e-5p Cleavage 4.5 22.082 1 21
Osa08LNT0417000.1 osa-miR1882e-3p Translation 5.0 11.652 1 24
Osa08LNT0417000.1 osa-miR2863b Cleavage 5.0 8.827 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0417000.1 8 aro8-1 Physiological trait Eating quality RM223 RM80
Osa08LNT0417000.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0417000.1 8 nan Resistance or Tolerance Drought tolerance RG978 RZ66
Osa08LNT0417000.1 8 nan Physiological trait Source activity R727 R202
Osa08LNT0417000.1 8 qPN-8 Morphological trait Seed RM223 RM80
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