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

>Osa05LNT0307800.1

CTCCACAAAATGGGTTTCGTTTATTCGCCATCTTAGCCCATGTCACTGTCACGTAGTGACAACATATTTAGAGTGGTAAAACATCAAAAAATTCCAGAATTTGATCCATCGAGAACTGAAAGAAACTGCCATATGCTCCCATGTAAAACGGTATAAGCATCTAATATTGGATTCCACCATCATTTTTCAGCACTATTACACTGCAAACGCAGGACAGAGCTTCACCTGTGCAACAACAGAAGGGGCCTGCCACCTCCTTGGCTTTGACCACTACACACAGGTATGCTTGTTTTTGCATTTGCCCCGCCCATATTTACATGTTTCTAACACAATATACACCACCCACCTGACCTGGATGCGCAATTTCGCGCATGAGCAACTTCAGTTATCTTCTGAAGACGGCCGGTGATCGGTGAGGCTGCTTATTTTTGGAGTATATATTCTGTTTAGATAGTCTGCCCTCCTTATGGTAGACCCATTAGCATGCACAACAGGAATGCAAGAGCCCATTGACACGAATGCTGCCGCGTGGCATATGATGAGTGAGGAGCAGGGGCCACAGCTGGCGATTGGGCAGTACTATGTGCATGAGCAAGTACTGGAGATGGATCAGAGGGGCTATGGTGCCTATTTGGGTTATTCGGAGAGTGATGAACAGAAGTTGATGGACTGATAGGTGATGGTGACACAGCACGAGGCATGTTGGCAGGTGAATCAAAGTGATTATTGTGTTTACTAGGTACTGGCTCAGCTGCTGGTGCTACAGGAGTTCTATTCTTTGGCTTATTGGTGTATGGATGTGAAAAACTAGACGGTGGAGATCTATATTTGGGTTGTTCAACAGGAGAATGTACAGGTGCAGGAGACGGACACAAATGCCTTTTTTCTTCATGACTATGGTGGTGGTGATGGTGGTGGTGGTGGTGATGGTGATGTTGATGATGATTGTGATGGCCTTGTTGAGGCAAGGGTGCTGGACTAGGTGCATCAGAGTCACTTCCACTGTGCAGAGAATGTCTAAGATAAGATGAGAGGCTTATCTGCTTTACTTTGCCAAACACCGTGTGGTTCAGGCCCAAGTTTCCTGAAGATGAATTAGCAATTGTTTTAGCCAACTGCTTCATCCTTGGAAGGGAGGGCTGGTGATTACCAACTTCAAGAACAATGGAGGCCTGAACAATTGTTGGTGGTCTCACCGTTGAACCTTCTGAATTTGTTAGTTTGATGTAGAGGTTCTCATAGGGATCGAGCTGTAGTCCTGCCTTCATTTGGTCTTTCAACTCATTCATTCTACCTTGCACTTTATAGATTGGGAAGTTCAGAGTGAAGTTGAAGGATGCGTAAGGCTTCTGCAGAAGAAAAGCAGCTTGTGGAGGGATAATGGTTATTCCACCAGGGAACTTAAGAACCTCGAATAACGATGTGTCCCCAAACAGAGACTCTGTCAAGTGGAGTGTTGACTGCTCTACAACCAGGGACATAAAAGAAGCCCTAAGAATGCTCAAGTACATGGAAGATATACTTGAGTATTTTGGATAAGGCACAATGCTGAAAATGACATTTGTCCAGTTTGGTGCACCTATTGGTTGTAGGAAATTTACAGCCACAGTAGAGTTAGGAATGCCAATTTCCCCGTAGATGTCAAATTCAAGCTTAGAAGTACTTCCACTCAACTCAGAAACTGTCTTCTGTAGCATAAAGCTCGCCACTATGTCAGCCGCGAACGCGTCGCCGGGAGGCCCCGGCGGCGGCGGCGCCCCCGCGCGGGCGCGGTGGGCGGCGAAGGGCTTGAGCAGGAACAGCGCGGAGAGCGCCATGGCCGCGCCCAGCAGCAGCGCGGCCACGCATTGCGGCCGCACGGCCCCCCCGCGGCACCCTCCACCTCCTCCTCCGTCTCCGCCTCCTCCTCGTCCGCCGCCTGCTGCCTCCGGCTGCTCCCGCCGCTGGCCCGCCACCGCCTTCCCCATTCTTCCCCCCCGCCGCCCTCACGCATCGGCCACCCCCATTGGCTAGGGTTTTGGGGGTGGCTCGGAGCTCGCGCTGCTTCGGTCGGCGGCGGCGGCTGCTTGCTTGGTTGCTTCGCTTCTTCGCTGCGGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.758008
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0307800.1 5 18002362 G A
Osa05LNT0307800.1 5 18004154 G A
Osa05LNT0307800.1 5 18005872 G A
Osa05LNT0307800.1 5 18007192 C G
Osa05LNT0307800.1 5 18006058 T C
Osa05LNT0307800.1 5 18002826 T A
Osa05LNT0307800.1 5 18002985 C T
Osa05LNT0307800.1 5 18005922 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
Osa05LNT0307800.1 osa-miR6253 Translation 4.5 20.667 1 22
Osa05LNT0307800.1 osa-miR414 Translation 3.5 22.703 1 21
Osa05LNT0307800.1 osa-miR414 Cleavage 4.5 17.292 1 21
Osa05LNT0307800.1 osa-miR2905 Cleavage 5.0 15.939 1 21
Osa05LNT0307800.1 osa-miR5504 Translation 4.5 18.156 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0307800.1 5 QKw5 Morphological trait Seed RG182 RG13
Osa05LNT0307800.1 5 qLTG-5 Resistance or Tolerance Cold tolerance RM249 RG13
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