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

>Osa02LNT0157600.1

CAGAGTACATCTTTGAACCAAAGATGAATTGATGATTAGTTACTTTAATCATTGGCATTTGGTACCCCGTCAAGGAATAAAAGACTACACAACGAAAAATACAAGGGGAACAATAAATACCTCTGCCATTGAAAAGAAAAGGGTTAGCATTGTGTGCTTTCTAAAATACAAGTTAAGTTGATTAAAGATTACATGTACAATTCTGTAATTACAGCATCGTGATGACTTGACAGCAGCAACATGGTTGTGTTGATTTACATCTTCCAACTCCCTCTGCACAGACCTATCCCCAAGGCACTCTAGCAAACTCATTTGAGAATCTGCCATGACTTTGCTGAAATCTGATGATTTCCTTGAGGCTCACTTGTACAATGATAAACTTTGCAGAGGAAAATTCCTGGAGAAGTACACATAACACATGGCAACCAATCGTTCAGCCTTCCAGCGCATATCTCTGAATCTCAAGCATATTTTCCTCGATAAAGCAATTCAACCCTGTGCTTGTGATATCTGCACCATTGTGCTGCAAGATCCTGAGCTTTCCTTCCTTGGTCCCATAAACAAGACCACCTCCAGGGGAAGGATGAAAGCATGCAACGTTTACTTCATCTTCAGCACTAGGAAGAACTCTTACCAGCTCCATGTCCGATACTCTATAGACCTCCAAGATAGTATATACAGGAATTCCAGTTTCCCCATCCATCACAATGCTCCTAAGCATAGAGTTATGACGACGACCATATGCCAATAGTATGTGCTCTGAAGTGGGTGAGAACTGGATGGAAGTTAAGCAATGAGCTGCCCTTATCGCTCTTGATGTAAGAACTTTGCCAAACGTTGCCTCCTCAAGAGAGTAAACTCGGAGCTCATAAATAACTCGGTGAGAAGGGAGAGGGTGACGAGTTGGTGATGTTCCGGCCCCTGCAGAATCATACTGCACAGGCAATTGGCTACCACGGTCGCCTTCAGTTTGAGGCAGCAAACAGGCAACACATGCTACCAGAAATCGTCCACAAGGGGAAAAATGGGCACCCATTTCACTGCAGAGAACGGCATGAGAAATTGTCAACCGGCATGCCTCGGGTTCCAATGTAACACATGGATCCTTGATATCATGCCGCCATATTCTAAGCTTCACTGTGCAAGGTAATTCAGCAGCTCCAGCAGCAAGCAGTGAGGTAGTAAGTTCAGATCCAACACCTAATGATGCAGCATGAACCTCAGCTTCATCAATTTGGGGGCCTAGAAGTGAACTCCCAACCCCACGTAATGAGCCCACAACATGACGACGAGAAGCATGATGTCGATTTGATCCTCTAGAACTGCCGACATCAATCGGAATAGATGGAGAAGCACCTGTATGATTTTGGGCCATGAACCAGCCCTGCAAAAAGGGAAGCTCCCAGCTACGCGAGTCACTGAAGAGATCATGATGATGATTTCCACCCTCTGAATTTCTTAGGATCATGTGAACATCTAATCCACTAGAAGTGGTAAACGAATTCATTGGCATACCATGACGGCCATCATGTTCTGAAGGCTGAGATGTTGCTGGAATCGGCACGCTGTTGCTCAGGGAGGGCATTTGCACATCATCTCTAGCAGTAGAACTCTCATGATTACTAGTGGAGCTACTGCCCAGTAATCTGGAGCTAGGTTGCCCCCTGTCAATCTGCATTTCAACTCCACTTAAACCAGATGCAGAAGCATGAGAAGTAGATGGTTCTCCAGGGCACACATCCATAGGCGTGACAAGTTGGTCAGGCTGTTGATTTTCAACATCTGATGCCAATGGATTTTGAGCTAAAGATGATGGTCTCTGATGCACATTGGTTGAACTACTAACCAAGTCATTGCGAATCAGACATAAACTTCCATCATCCCTGAGGTATGCAGGCCAAAGCAAGCAAGGTGATGATGAATTAGCCTCATGATGTGGACAGTTTCTGGAATTAATATTTGCAAAAAACACAGCCGAGGGATAGTTTGAATAGCCCGAAGAGGTTGCAAGGGTCAATGGTGAGTCCGCAGAATCAAGATTATTAACCTCTGCAGTAAGAAGATATGGAGCACCATGGGGGTGAAAATGGACAGCTCTTAGTGAGCGGCGGGTTCTTAATATAATGGTTGGAGCAGCAGCCTCATCTCTTTTATTGTAGTTCCATATGTACAGCTGATGCAACTGCCAGAATCTCCCCCCTTGCATGAAATGCTATTGATGCAATTGGCCGATCTATCAAATAAGAGAACATCACTGAAAAGGTTAGTATTCAGATTTCACCCATGGAAGGAGACATACTCATTAGGATCTGCTTAGATATATTACGGAAGTCCTGAGATCCAATACAGTCTGAGGTTTTAGCGTCCCAAAGACGGACTTCCTGATCCAAACTACCGCTAGCAAGGATATCAGGAAGTAATGGATGGTATCTAACCACCCAAGGCGTGCGCCGATGTCCACTCAGCACTTTCAAACATTTCCCAGTTTGATAGTCAATTATTTTAACAGTATGATCACCATGTGTAGATGCAAGTGTTTTCCCATCTGGGCTGAATGCAGCTGCGATAGTAGACCTGGGGGGTGGCAAAAGAGGACAATATTTGGCAGACCAGTGATGCAGGGACTGTGATTCTGCCCATGAATATATATCATGTTTAGCATCTGTAGCTGCATATCTTAGTTCATTGGAATCAGCATCATTTCCTGGAGATTTGCTCCAAAGTTTTTTAGCTTGGTGTTTTGTTCGAGGGGAAATCTCTCGCTGAGCTAATAGATCGAAGATGTTCCTTTGCCTAGATCTTGCAGATGTTGCTTGATATCTAGAATACGATGCTTGTGCAGAAGCATGCTTTGAACCTTCTGCCCAATGTTCAGCCATTTCAGGCCTTCAATATATATATGCACCACGACGAGGGGATGCCTGGAAACCGGGCGGATCTGGTTGCCCGGCGGTGCGGAGAGGCAGGGGGGACGAGGGGCGGGAGACCGAGGCCGCGGCAAGGGAGGGGGGCGCGGGGGAACGGAAGGGGTCGGTTCTGCGGTCGCCGGCGAAAGACGCCGGGGAGCGGGCGGCGGCGGCGGCGGCGGCGAGGTGGGG

Coding Potentia
Explanation CPC Score
noncoding -1.17275
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0157600.1 2 10973955 T C
Osa02LNT0157600.1 2 10975572 A T
Osa02LNT0157600.1 2 10981831 G T
Osa02LNT0157600.1 2 10972776 T A
Osa02LNT0157600.1 2 10972925 C G
Osa02LNT0157600.1 2 10973772 T G
Osa02LNT0157600.1 2 10974180 G C
Osa02LNT0157600.1 2 10974306 T C
Osa02LNT0157600.1 2 10974623 C T
Osa02LNT0157600.1 2 10975160 A G
Osa02LNT0157600.1 2 10976455 A C
Osa02LNT0157600.1 2 10976662 T A
Osa02LNT0157600.1 2 10976821 A G
Osa02LNT0157600.1 2 10977958 G A
Osa02LNT0157600.1 2 10978650 G A
Osa02LNT0157600.1 2 10978841 C A
Osa02LNT0157600.1 2 10979914 A G
Osa02LNT0157600.1 2 10980326 A G
Osa02LNT0157600.1 2 10980327 A T
Osa02LNT0157600.1 2 10980834 A G
Osa02LNT0157600.1 2 10982765 T C
Osa02LNT0157600.1 2 10983266 A G
Osa02LNT0157600.1 2 10984542 C T
Osa02LNT0157600.1 2 10984704 G A
Osa02LNT0157600.1 2 10978107 T C
Osa02LNT0157600.1 2 10984725 C A
Osa02LNT0157600.1 2 10985758 C T
Osa02LNT0157600.1 2 10985541 A G
Osa02LNT0157600.1 2 10985724 G 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
Osa02LNT0157600.1 osa-miR7694-5p Translation 3.5 24.742 1 24
Osa02LNT0157600.1 osa-miR390-5p Translation 5.0 19.494 1 21
Osa02LNT0157600.1 osa-miR444a-3p.1 Translation 4.0 16.848 1 21
Osa02LNT0157600.1 osa-miR444a-3p.1 Cleavage 4.5 23.291 1 21
Osa02LNT0157600.1 osa-miR530-5p Translation 4.5 14.977 1 20
Osa02LNT0157600.1 osa-miR444d.1 Cleavage 4.5 23.291 1 21
Osa02LNT0157600.1 osa-miR1319a Cleavage 5.0 13.31 1 24
Osa02LNT0157600.1 osa-miR2096-3p Translation 4.5 17.478 1 21
Osa02LNT0157600.1 osa-miR2102-3p Translation 4.0 20.229 1 22
Osa02LNT0157600.1 osa-miR2105 Translation 5.0 18.729 1 20
Osa02LNT0157600.1 osa-miR2922 Cleavage 4.5 13.481 1 20
Osa02LNT0157600.1 osa-miR5151 Translation 5.0 20.144 1 22
Osa02LNT0157600.1 osa-miR5812 Translation 5.0 13.641 1 24
Osa02LNT0157600.1 osa-miR444d.1 Translation 4.0 16.848 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0157600.1 2 tgw2 Morphological trait Seed RM290 RM550
Osa02LNT0157600.1 2 qLRS-2 Resistance or Tolerance Drought tolerance RM322 RM324
Osa02LNT0157600.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0157600.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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