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

>Osa01LNT0039500.1

CCTCAGCCATAACTAGACGTGCATATATATATATGTACAATGTAGAACCGTACAGGGACAAAAATTTTCGGCAATGTTGAGGAGATTTTTCCAACATGTGTACAAGGGATCTTTTGCTTGCGCTATGAGTTGCACTATAAAGCTTAACGTAGAAAATATATGTAGTTGTATGTGACTGTACGAAAGGATGGTTGTAGATGCGCCTATGAGCAATTCACCACTCTTCACTGCCTCTTGGCTAGCGTCTTCTTGAGACCTCTCAAGATTTTGACAAACCACACTGTGTTCATCACTAATAGTATTGTGGGCACAGCGAATATCAGAATGCAGCTAAAGGTGCGCATCTGCTTAACCTGATCAATGTGAAAGTATATGTGGTAAAACAAGTAGATGAACAAAATTATCCTTGCCACCAGCCATGCAACAAACATTGTAACACCATTGACAAGATAGGCTTTCGATCTTTTCATTCCAACAGTATCAAGAAACCATCGGAGGTTGATTCCAGGTGTGGTTGTTTCAGAGATGAGAACCATGTATGTGTACAACTGTCCTTCTTCAGAATAAATAGCATAGACTAAAGAAATAATTGACAGCAAGTGGTGAAGAACATACTCCATTCCGCCAAGGGAAGGATAAGCCCAGGATAACATAGCAAGGTCAGCGATGAAGTACCCCAGAGAAACCCCCAGTGTAAAATTGGAGAGGTTTGAACTCCGAACTGTTACTGGGCCATCCAGCTCATCAGAGAATAGGTTGGAGAAGAATACTAGGTAAACTGACATTAATGTGATAAACATTGCATGGACAGTGGACATGCCCCTGTTGTTCCACTCAAGCTTTTGGATTTTCGTAAGAGAACCATAACCCTTGTAGTACAATGAACTGATTAAGTGTGTGATGTCATAGACCATTTTGCACATCAGGATCCCACCAAGCACAGCAGTGTATGAAACATAACAATCTGCAAGAAGGTAGTCCTTAACAAGTGATTCTGCTCTGTACTTGTAGGCCTTAGCAGCCACTACTGAAGTCGTGGACAGATCCATCATCTGATATACCTTGACTCCTGACCTTCAGTTCTATTCCGGCCGAGGTGGAGGTCGGCGGTGGAAGGATGCCTCCCGCATAGCCCCCCTCCGAACCTGAGCTCTCGCTGGCCCTGCGCCGCTCGAGTAGGCCGCGCCAACCGAGGATGCTAGGTCGGGCTCGGCGACGCGCCTCTGGGCTTGCTCGCCGGCCGCGCGTGCGGGGTCGCGGACTCGCGGGGAGAGAAGGCCGGCCGCCCGTTCCTCCGGCTTACACGGGAAAGCGAGAGCGAAGATGAAGGTGC

Coding Potentia
Explanation CPC Score
noncoding -1.3741
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0039500.1 1 32381733 C G
Osa01LNT0039500.1 1 32383340 A G
Osa01LNT0039500.1 1 32383693 C T
Osa01LNT0039500.1 1 32383751 T A
Osa01LNT0039500.1 1 32383962 A C
Osa01LNT0039500.1 1 32384693 T G
Osa01LNT0039500.1 1 32384833 T G
Osa01LNT0039500.1 1 32384768 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0039500.1 osa-miR166k-5p Translation 4.5 12.563 1 21
Osa01LNT0039500.1 osa-miR5159 Cleavage 5.0 21.515 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0039500.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0039500.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0039500.1 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
Osa01LNT0039500.1 1 gpy1 Others Others RG541 RG101
Osa01LNT0039500.1 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0039500.1 1 qCC-1 Physiological trait Source activity RG541 RG101
Osa01LNT0039500.1 1 nan Physiological trait Source activity RG532 RM472
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