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

>Osa10LNT0075500.1

GCAAGAAATGCTGAGGCTTGCACAAGTGAACTGTCAGCAACAAAAGCATACATGCATACACTCTCATACAGACCGGAACAAAGTACTATATGATCAATTATCCATCTTCCTTTCTTCAGATTACATAACCCAAACAGGAACAAGTGCAAACTGAATGTCTGTATTGTGCTGCTGAAAGCCTGAAACTGAACCAATTTCCATGCAGATTCCAGTTCTTCCAGCTGCCATTCTCAACTAGTATATCTTCTACCACATCGCATGAAAAATTGCTACCAATTTCAGATATGTACACTCCCAAAAACAACCAAATATGTCTATGTATACAGTATACACAACACATGAACTAATACATAAATATGAACAATCAGTGAGTACTGTCCCAGTTCTCTCAGTCCTCTAAATACAAAAGCCAGCCAGAGGGGAATAGAGGCCTCTAATTATTATAATATTATTATATTAGAGTGTATTTACACATAGTATAAGCAGATATTGAAAAGGAATAGGGCCTGCAATATTATAATGTTATTTTCTCTAAGTACCATATATATAGATAGAGCCACCAAGAGAAACCCAGTTCTCAATTTGCCCAGATTTCAAGGCGGTCAGGGCAGCTACGTTGTGAAACTAGTGGTGGAACAAGGGAAGGTGTCAGGATGGCACCTTCATGCATCTTACTTGCAAGTTGAGAGGATCAAATTGCAACTCTTCGCAGATATCTTGGAGGAACTCTGCCTTCTTTGGGGTCGCAGCCAACTCATTGTTAAAGAATTTAGTAGGTCTGAAATACTCGAGCCTTGACATCTGTGATGATTGCTTCTGCTTCGTACTTCGCCAGTCCAAATATATTCCTCAGTTGATTCAAAGCCGCAAGCTTGTCATCGTTAAGATGTCCATCTGAAAGTACCTCCATTGCATAGGCACTATAGAGCATCTTTAGATCCTCTACCCTCTTTTCATGATCACTGTCTCCACCTAATGTAATAGGCCCAAGCCCGCGGACAAATCTTTCTTCTCCCGGGAAATTGCTCAGTACTGTAAGCATACCATTAAATGAAAGGATGCTTTTCACTTCTTCAACAACCTGTGTTCGGTTATTCAAGTTGTTCAAGGCTGTTGAAATGTTTTCTTCAACTAACTTCTTTGCATGCTCCCTGAACATCTCAGAAGCAATCTCATCAGAAAGTTTATATGCTAGTTGTGATCTCCTTACTTCAATTAATGTGCCTATGTCAAGACCTCTCCCAATAGACTTGAGCAATGATGCATATAAACTCTTGGCACTTTCCCTCATAACATCGTCTATCTGAGATTCATGAACCCCGAAAAGACGTTTCCATGGAAGTAGGTATTCATATGCATCCCGAAACACAAGATTTGTTACAAATATAAGCTTTTCAAATGCCTGCTGTTGTCCTACACCAGCATTGCGATCAATGCGTTTAGCAATCTCCATGTGCACATTTGCAGCATCTATATCATTCAACCCAAGGGCCTTTTTAAACTTTATAATAGTCTCAACTTCAGTACCTTCAAGGTCTTCATATCCTGGATGAATTAATGAGAAAACAAACCTGCCATACAAATCACAGAGCTCGGCCTTGAAGGTTGCATCCTCTGTGCTAACGCCGTATTTGCTCGCGATGGCCTCCACCTCGCTGCTCTCCAGCTTGGTGGGGTCGTCGGAGCCGGCGACGTAGTTGTGCAGCCCCGCCGCGGCGACCCCGGGCACGGCGGAGTTCACCGCCGCGGCGCCCGCGACGCTGACCGCCCCGAGCGCCGCCGCGCCCGCCACCGTCGTGGTCCGCGTGCCCCCCGCGCGGAGCCCGACCACGTACCCCGCCGCCGCCGCCGCGGCCACCACCGCCAGCTCCACCACCGCCCTCGCCACCGGCGGCAGCGCCTCCACCAGCGGCTGCACCCCCGCCAGCTCCCTCCTCCCCCCGAACACCTCCTCCCCCGACGACACCGCCGCGCACACCACCCCCACCCTCCTCCTCCTCCCCCGCAGCGACAGCAGCGACGACGATGCCGCCGCCGCCGCCGCGGCGGCGGCGGCGGCGCGAGGCGAGGGCTTCGCGGAGGCAAGCGAGAGCTCCATTGCTGTGCGCGCGCGCGGCGTGGCGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.373695
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0075500.1 10 18688223 A C
Osa10LNT0075500.1 10 18689448 T A
Osa10LNT0075500.1 10 18689463 G A
Osa10LNT0075500.1 10 18690527 A G
Osa10LNT0075500.1 10 18690855 T G
Osa10LNT0075500.1 10 18691171 T G
Osa10LNT0075500.1 10 18691405 T A
Osa10LNT0075500.1 10 18691779 T C
Osa10LNT0075500.1 10 18692472 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
Osa10LNT0075500.1 osa-miR5531 Cleavage 4.0 19.679 1 22
Osa10LNT0075500.1 osa-miR5796 Translation 4.5 13.524 1 21
Osa10LNT0075500.1 osa-miR395o Cleavage 4.5 12.813 1 21
Osa10LNT0075500.1 osa-miR815a Cleavage 4.5 14.681 1 21
Osa10LNT0075500.1 osa-miR815b Cleavage 4.5 14.681 1 21
Osa10LNT0075500.1 osa-miR815c Cleavage 4.5 14.681 1 21
Osa10LNT0075500.1 osa-miR396f-3p Cleavage 5.0 9.647 1 24
Osa10LNT0075500.1 osa-miR2920 Translation 4.5 15.361 1 23
Osa10LNT0075500.1 osa-miR5157a-3p Translation 4.5 13.425 1 24
Osa10LNT0075500.1 osa-miR5157b-3p Translation 4.5 13.425 1 24
Osa10LNT0075500.1 osa-miR2275d Translation 4.0 17.418 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0075500.1 10 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0075500.1 10 nan Physiological trait Sterility C701 C16
Osa10LNT0075500.1 10 nan Resistance or Tolerance Drought tolerance RZ892 BCD386
Osa10LNT0075500.1 10 qRf-10-2 Physiological trait Sterility RM258 RZ811
Osa10LNT0075500.1 10 Rf Physiological trait Sterility 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