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

>Osa01LNT0014300.1

CGAAAGAGATTATAAGGCAATGATTTGTTGTATCTGAAGCCTTTAAAGTACAACAATTGATCTTTCCCTTCACTTGCAGCTATATGTCTATACAATTGTCCACGCCAGAGTGCAATGAAAGTGGATTTTGTGGTGATGGTGATTCTTCTCCTACTGACAGTCTCCCCAATCATCAAAGCCCAAGTTGTCATGATGTTACAGAGTTATAGAATGCGCAGTGATGCATTTGAATTAATAAGGATCAGACAATTGCTAAGATTCCAGTGCATGTCACTGGGTAGGCCAAGGGGAATTGGTGTGCATCACCTGTTCATGCAAATGGATTTGGTGTAGAGCTTCCAACAACATTATCCACTGCAATAGGCCAAGGGGCACCGATCAGTGGCCACCTGCATACATATACATATTGAAATTAGTAGTTCATCAGTCAAGATGATCAGTGGTTATCTTGGGCTCTATCAGTTGTTCATAGCAAGAGGACAACTCATGTGCATGATCAAATTATCATGTAGACGATGGAAATAAGTGTCCCACCAGCTTTAGGCTCTATCAGAATGCATGTTTACCTGCAGGAAAGTGTACTAAATTATTGAAAAGTTTGAAGTGAATCTTATTTCCATATTCTACTACATAGAAACAAAATGCAAGGAAGAAATTCATATAACAGTCTTCTCCTTTTTGTCTCTGCCTCCATTAACAGAAATTCCAAAGCTCCATATGAATGCCCTATAGGACAATAGGACACTGCACATAAATATGTCATCAATTTCTCATATTCTTATTTGTAGAACTGCATTACAGGGAGGAATACAATAGCCCATGGCTAGCATAATTCTCATGGAGGTAGATTTCAAACAGATCAAAATAGCAGAACTTTAATGACTCATATGAGCAAGCCTGTGATTAGTCGATTGAGAGCATGTTTTGGAATATATATCACAGGAAATAATATATAATATCTATTGTAATATACAATGTGACACCCAACTATTAGTCCATTTAAGTCAGTAATTCATGGAAAAAAAGGTGCATACACTGTCATTATAGCTCATAGTCCACTTTCCCTGTCTCTTTGCGCCCTTCCTCTTCCCCTTGCTTTTCCTGTGAGCCATCGAGCTGCCACCACTGGACATACCAAGGAGTAAAAATTAAAATTGTACCATCAGTATTCAGTAACTTACAAAACAAATAGCTTTATTTGATGAGAGGCATATACATGGATATTGCAAAGTTTTATTCACTCCAAATCTGAAGATGTACACATTGGCCTAAATCTATATAAATCTCAAGACATAAACTGGTGACCTTATATAAACCTCAAGATGTACACAGGTGACCAAAATATTGTAATTGATTTACTTTTCCACTTAAACTGAAAAGGTTGTGTATGGTCCAAACAGAATGAAAAACAGTCACATAAATTGTTTCAGTAGAGAGATGGGTACCATTCCCTGGTCTCCGAAGCAGACTACCATTCCAAAGGTCATATAAAGTGCAGACGACATCAATCCAAAGTGGCAAGCAGAATGATCTATACATGGATGTGTTAAACTTAACTCGACCCTGTCAAGCCATCAACTCTGATTTGATGAACATTCATTCTTTTATATATATATATATCCTCGATTAAAATTTCTGATAACTATTGAAATACATAATTGCCAAGCCTACTCCTTTTTCCCAAGTTATGTTTTCTAATAACGTCTAAGCAGTAAAACTTTGTGTATATAGAATGATCTTCTTCAAATTTTGTGCATATAGAATGATCTTTTTTTTGCCCTGCCTCCCGTTTACCTATTACTCTTTCTTCTTCTTGCAGGGAAAGAAAAATCAATCCTCGCTGACTTATGCACAAACTGCACAAATTTCATAAAGTGCATGCATATATGCATTCTGATTTTCATCTCAGATGCAAGAATTTGCTCAAAAATAAATATGATCTTCAGCCAATGTGCAGAGGTATGCATAAATCAATTGATTCTAACCTGTGGCAGTTAGGTTAACCAGAGACATTCAAGTACATTTGCTGGAGATAATTCAACCACTGGAGAAAATTTTCATACATTTTCAGTTTTTCAGTATGGTCGTAACCTGTGGCAGCGCTGGAGTTTGGCGGCGGCGGCGGCAGCTGGGGATGACCTCAGCTCCGTCGGCGGCGGCAGATGGGGAGGACGTCGGCTCCAGCTGTGGCCGATGGGGAAGAGGAACGACCTCGTCTCCAGCGTGGCCAGCGGTGGAACCATATCTTGCACACCATGGCGAGCGAGACCAACAAATTGAAGGGCGCAGCACGACGGTAAGTCGTAATCACGAAAGCCAATAGAGCAACTCAGTTGTCAGAAGCAGTCGGCAGACCACCAATCACATGAAGGGTGGAAGAAGCAAATTCCATCTGAGGGTGAGAAGGGAGGATATCACCGGCGAGGAGGCCCATGCGACAGGGAAGGAGCAGAAAGCCCGACGAACTTCTTGTGCGGCGCCGCGAGTGACGATGATCTTCCTGGGCGGCACCGAGGTCGAGGGATCCCATCGAAGTCGGGCTGATCCTTGATCGCCTGTGGGAAGGGGGAGGGGGTGCGACACGGGGATTCCGGGCACGACCTGCACACTGCACAGGTAGGGTAGGGGTAGGCAGTGGGCGATGAACGGCGCCGAGCTCCGCTGAGCCGTCGGAGTGGAGAGGATGCGCAAAGAGCGCATGGCCGGCGCGGTGGAGGGGACGGTTGAGGTGGAGTGGGAGGGATGATGGGGCGACGGCGGCGCGGCGCGTTGGCAGCGTCGGTGGTGATTGGCGTGAGGGTGGGGATTTTTGGG

Coding Potentia
Explanation CPC Score
noncoding -1.18675
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0014300.1 1 10349717 G 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
Osa01LNT0014300.1 osa-miR5541 Cleavage 3.5 16.79 1 21
Osa01LNT0014300.1 osa-miR5797 Cleavage 4.0 14.607 1 21
Osa01LNT0014300.1 osa-miR5797 Cleavage 4.5 13.324 1 21
Osa01LNT0014300.1 osa-miR5834 Cleavage 5.0 14.912 1 21
Osa01LNT0014300.1 osa-miR397a Translation 4.5 11.65 1 21
Osa01LNT0014300.1 osa-miR397b Translation 5.0 11.65 1 21
Osa01LNT0014300.1 osa-miR159a.1 Cleavage 5.0 10.207 1 21
Osa01LNT0014300.1 osa-miR159b Cleavage 5.0 10.207 1 21
Osa01LNT0014300.1 osa-miR166g-5p Translation 3.5 9.146 1 21
Osa01LNT0014300.1 osa-miR1859 Translation 5.0 11.034 1 22
Osa01LNT0014300.1 osa-miR1865-3p Cleavage 3.5 17.842 1 24
Osa01LNT0014300.1 osa-miR2098-5p Translation 4.5 14.405 1 20
Osa01LNT0014300.1 osa-miR2868 Cleavage 2.5 13.317 1 20
Osa01LNT0014300.1 osa-miR2877 Cleavage 5.0 19.354 1 24
Osa01LNT0014300.1 osa-miR2877 Cleavage 5.0 24.299 1 24
Osa01LNT0014300.1 osa-miR2878-5p Cleavage 4.5 16.202 1 24
Osa01LNT0014300.1 osa-miR2878-5p Cleavage 5.0 9.787 1 24
Osa01LNT0014300.1 osa-miR2918 Cleavage 4.5 13.277 1 21
Osa01LNT0014300.1 osa-miR5150-5p Cleavage 3.5 14.727 1 24
Osa01LNT0014300.1 osa-miR5160 Cleavage 4.0 14.032 1 22
Osa01LNT0014300.1 osa-miR5502 Translation 4.5 14.126 1 22
Osa01LNT0014300.1 osa-miR5517 Translation 4.5 18.135 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0014300.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0014300.1 1 QBphr1 Resistance or Tolerance Insect resistance R210 RZ382
Osa01LNT0014300.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0014300.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0014300.1 1 nan Resistance or Tolerance Insect resistance RM576 RM3412
Osa01LNT0014300.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0014300.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0014300.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
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