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

>Osa08LNT0417700.1

ACCATGCAAGCTAAATATAGTTGCATTAATCCGATCCTGCTATCACAAATGGAGTAGAGCTAGGAAAAATATTATACAAGAGAGTAGACCTATAGTTTGTAGGAATACACATCAGCAAGTAGCATCATTTTCCCTTATAGTTCAAAAAGATCACTCAAGTTCACCAAAAAGGTGAAAAGAAAACGATGATGAAATTAAGAATTCATATCATCATCCACGTTGCATTCTCCAAGGTAGACCTTGATGCTTCTTGGTGACCCGCAGTTGCCTTCTGCAATAAGAGCTCTATCGTTTGCAGCCATGTGTTGGATTATTTTGTATATCATTTCGATCTCTTCAGGACAGTGGCAGCGATCTGCAATTTGATCCAGTGTCAATGGCTCAGCAGGGTCCTTGCAGCTGGCTTCGTTAAGAACAAGTAGGATCCTTTTCTGAAGTGCCAACACCTCTCCAGCAGCCTTTTTCCCTGCTTCGACACCAGGTTGATGATAGGCATTGATGTTGATTAAATAAGCATAAAGACCGACAGCACGCTCATAGAGTGCAACAAGTGCTCCAACAGCTCTAGGGTTTACTTCTTGGACAGTGACTGTAATAGATTCGCGGTCATTTGCATAAAGAGCTGAACGAGTTCCATGTAGCATTCCAAACAAGTAGTCCCCACATGTAACACTTGGTTCAAGCTCCCACTCATGACCAGGAGGCCTATCGCGCAAAACTTCAATAAAAGTAACAAAGAAGTTGTGCACACCTTCTCTCAGCTGCTGAATGTAGGCATGCTGGTCTGTGCTTCCTTTGTTACCATAAACAGTTAGTCCCTGATTAACCCGATTTCCATCAAGGTCAAATTCTTTTCCAAGAGATTCCATGACAAGTTGTTGCAAGTATCTACTCAAAAGAAGCAGGCTTACTGCCTATTCCATCCGATGCCCAATACCAACACAATGCAAGCAAGGCTGCTGGATTTTCCTTAATCTCAGTATTCCTAGTTTCCTCATCCATTTGTGCAGCACCAACTAGCATTTCCTTGATGTCAATACCCTGTAATGCTGCTGGCAGTAAACCAACAGCTGACATTTCTGATGTTCTACCACCAACCCAGTCAAACATGGGAAATCTAGCTAACCACCCCTCTATTCTGGCAGTGTTATCTAATAAAGAATTCTCTTGAGTAATTGCAACACCCTGCAAAATAGCTGGTCCTACATTATATCAAATTTAATCATGGATCAAACACGTGCATCCACGATTAGAAGAAAATAATAAAATTCACAGGGACCTATGATTCTTATTTTGTTTGGTAGAATCACAGGAACCTATGATAATATACAGTAAGCAATTATCTGATCAATGTTTGGTCACCATCCTTGTAAAAGAATGTCAGGTCACCATTGGAAAAGGTTTCTAATTAGCATAATGGATACATAAAAAAATAAATTAAAATCTGGCTATCTATGTTATGGCTCAAGTACTATGATTGGGAGAAGAACACTAAGACAACATTTAGTAAAGCATAATATTACAGTGATCAAATCATCAAAAGAAGGGATATTGCAGGAGACTACTTTTTTCGTTTAGAAACAAAGTACTACGTGACAGACGGTAAACTGAGAATGAAACTTTCACACCCACAGTCTCGTACAGAGCAACATACAGTATTTGATACCGAAGAGAAAGAAAGCATAGAAGGACAAAAAAGAACCTTAGGTCACAACCTGTTTCGAGAATTCTAGTCCAGCATCTCGGAAGGCCTTTTGTACTTCTAATAGACCATTTCGTGTTTCAGGTGTGCCTCCACTCTTTGATATTACAATCACAAGAGTTGATGCAAGTTCTGGTCCTAGCTGTGCAATCTGATGGTCAATTCCAGCTGGATCGGTGTTGTCGATAAATCTTATCTGACACAGCCATCAGAAAGATAAGGTAGATCACACTTCACACACACAGTACTTTGAGCATCAGAGGAGGGTTATCTGGAGCAAGTGCCTCCGCAACAAATTGTGGCCCCAAAGATGAACCACCAATTCCTATAGAAAGTATTTGAGTAAATCGGCCAGCAGGGGAGGATGGAGGTCTTATCTTGGCGGAGATGACGTCGCTGGCGAACGCGAGGATGCGTTCGAGCGTGGTCTCGATTTTGTCGCGGAGGAAGGAGTTGGGGGCGAGGGCCGGGTTGCGCAGCCAGTAGTGGCCGACCATCCGGCCCTCGTCGGGGTTGGCGATGGCGCCCTTCTCGAGCTCCCGCATCGCCGCGAACGCCCGCCCCATGGGCGCCTCCATCCGCCGCAGGAACTCCTCGGTGAACCCGATCCGGCTCACGTCGACGAACAGCCCCAGCTGCTTGTGCTGGTACAGCCACTCCACGTAGCGGTTCCACAGCCTGATGGGGTCCTTGTCCACCGCGCCATGGGCGAGGACGTCGGCGTGGCCCGACTGCTTGGAGCTGAGCGAGCGGGGAGGAGAGGATGACGACGACGAGCAGGAGCGGGAGACGTCGGTGATGGAGCTGGGACGGGCGAGGCGGAAGTGGGAGGAGCGCGGGAGGTGGTCTCGCCGGAGGCGGAGGCCGCACGACGCCCCGGAGGAGGAGGGCGCCGCCGCCGCCGCGCCGGAGATGGAAGCCATCGCCGGAGTTGGAGCGTGTGGCTTT

Coding Potentia
Explanation CPC Score
noncoding -1.10682
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0417700.1 8 23624242 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0417700.1 osa-miR418 Cleavage 5.0 14.765 1 21
Osa08LNT0417700.1 osa-miR1850.3 Translation 3.5 13.325 1 22
Osa08LNT0417700.1 osa-miR1857-5p Cleavage 4.0 16.936 1 21
Osa08LNT0417700.1 osa-miR1873 Translation 5.0 15.456 1 24
Osa08LNT0417700.1 osa-miR1882e-3p Translation 5.0 16.798 1 24
Osa08LNT0417700.1 osa-miR2121a Translation 4.5 17.301 1 24
Osa08LNT0417700.1 osa-miR2121b Translation 4.5 17.301 1 24
Osa08LNT0417700.1 osa-miR2118b Translation 5.0 19.648 1 22
Osa08LNT0417700.1 osa-miR2118n Translation 5.0 19.648 1 22
Osa08LNT0417700.1 osa-miR2275a Cleavage 4.5 13.426 1 22
Osa08LNT0417700.1 osa-miR2275b Cleavage 4.5 13.426 1 22
Osa08LNT0417700.1 osa-miR2872 Cleavage 4.5 20.321 1 21
Osa08LNT0417700.1 osa-miR5147 Cleavage 4.0 17.69 1 21
Osa08LNT0417700.1 osa-miR5494 Cleavage 5.0 14.404 1 21
Osa08LNT0417700.1 osa-miR5513 Translation 4.5 21.532 1 21
Osa08LNT0417700.1 osa-miR5534b Translation 5.0 11.846 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0417700.1 8 nan Physiological trait Source activity R727 R202
Osa08LNT0417700.1 8 qPN-8 Morphological trait Seed RM223 RM80
Osa08LNT0417700.1 8 aro8-1 Physiological trait Eating quality RM223 RM80
Osa08LNT0417700.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0417700.1 8 nan Resistance or Tolerance Drought tolerance RG978 RZ66
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