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

>Osa11LNT0104500.1

TGTTTATTGTTAGAGACACATGATATACTCGTTATAACGATCACAAAGTACAAAGTTGCATACTACAAGTGAAAAAACATAATCTTGGATACGTTTATAGACATAATTACAACAGCATAACAATCAGTTTTTGCTCTCAGATGTCCAAATTACAAGTGAGACATACTTCAGTGCCATGCATAATCCAACAAGGGAAGGGTAGGAAATGAACACTCCAGGGATGAGCTCCAAAATCTGACAAGGGGTTCAAGGATGTTATCTATTCCCTACAAGAGGGTTTGTTTTATGGCATTCAATTCCTTAATAATATCTCCAGTTGACATTCTATTCGACGGTATTTCCTGAGAGCAATACAATCCAAGCCTAAGCAATGAAACCAGGCAATCAATCATGACTTTGTATTCATCCGTGGTACGAAGTTCATTCTCAAGGTGCAAAGATAGCTGAGTGTCGACAACATCCATCATTTTACCATGTAGACCCAGCTCAACATACTCACGGAGGCTCAATCCTTGTATGAATTTCTTATCTGTGGGCCTCTTCCCAGTTACCGTTTCTAGCACAAGAATACCATAGCTGTAAATATCTCCTTGAGTCGATACCGTATTTCCAGCACCATACTCTGGGGGAGCATAACCGATTGTCCCTCTAAGTCCCATCGAGCTTGTAGACTGTTGGAGCAATGAGTTGCCTTCAAAAAGAATCTTAGCAAGTCCAAAGTCTCCAACATGTGCTACCATCTCAGCATCTAAAAGCACATTGCTCGGTTTGAGATCACAATGTACAACAGGTGTTGGTCCATGGCAATGTAGATAATCCAGCGCATTAGCCACATCAAGTAGTATGCCAACTCTCTGAAGAAGATTTAAGTACTTTGGGTTGTTTGTGGCAGGATGCAACCAGCCTTCTAAATTACCACTAGGCATGAAGTCAAACACAATTGCTTTGAAGTCATTGCCGCTGTTATCAATGCTTGAGCAAGCTGTAATTATCTTGACAAGATTCCGGTGTCGTAGATTTCGCAGTGCTTCACATTCAGCTGTGAAACTCTTGAGCGCTCCAGGAGTTTGGAGTTTTAGCACTTTGACAGCAATAATATCTTTACTTTGACCAGATTGTTTATCTAATTCTCCTTTATACACAGAACCAAATGATCCTGATCCCAACAAATTGGTCGCTGAGAAACTGTCTGTTGCCCTTGCCAGCTGAGAGTAAGAGATCAAAGGATGGCCTTCCATGCATGTGGTTGATGGTATCTTTGATTTTATTTTCTTGTACCGAGCCAGAAGCTTGTAGAATAATAAAAGCAGGAGTAATGTTGCCACAAGAGACACAACAATAGGAATTACCAGAAATTTCTGCCTTCTGTGCGGTGCTTGTGATGTACATCTAGGCAAATGTAGATCAGGCACGCCACCACAAAGTTTGCCATTCCCTTGAATTGAAATTGCAGAAGCATTCAAAAAGACACCAAGTGTAGGTACTTCTCCAACAAAATCATTGAATGAAAGGTTGAGATAACCGAGCATGGTAAGGTTTGATAGGAATGTGGGTATTTGACCAGACAAATTGTTACTCGAAAGATCAAGAGTTTGTAGGCCTTTCAATTGACTCAGGAGTGATGGAAGACTACCAGTTAACATGTTATTTTGGAGATAGATATTCTGGAGAAGTTGGCATTCACCAAGGGTAGTAGGGATTTCACCTGATAATTTATTTGATCTGGCATCTAAGTTTACAAGATTTTTCAGATTCCCGATTTGTTGTGGTATTGATCCCTCCAAGTTGTTATTCGACAGGTTCAAACCTTCAGAGAGACTGACAATGCTGACTACCTCTGTTGGGATTTGACCAGTAAAGTTATTGCTGTCTAGGCTTAGTCCTAATAAGTTTGTAAGGTTTCTAAAAATGCTTGGTATGCTACCGCTAAAAGCATTTGATCTGAGTTGTAAAATATATAGTTCTGTTAGGTTTCCTAATGTCAATGGAATTGGCCCACCAATTTTGTTGTTCCCTATGGAGAGAAGATGCAGATTTTGAAGCCTACCAATGGAGGAGGGAAGATGCCCTGTGAAATTGTTGTTATCGAGATTAAATGCTTGCAGATTGATGAGGTTATCAATATCTTCAGGTATGCTTCCCGAAATTTTGTTTGTGTCAAGGAAAAGATTTGTCAGAGAGGACAAATTGGAAAGTGAATCAGGAAGAACTCCTCCAAAGCTGCAACTAGCCAAGTACAACACGCTAAACTGGGAACAATTTGTTAATGCGGTTATGAATTTCCAATCGTTGGGGCTTCTAGCTTCAAGAAATGTTTCTGAAAGCTGTAGAATTTTGAGATTTCTTAAGCCTCCAATCTCTGGAGGAACGATACCGCTTAAGAAGTTAGCACCAAGCTGAACCAACCACAGATGGGAAGCATTGGCAATCGACGTAGGGATACTACCATGAAACTTGTTGTGGTCCATTCCTATAAGCTGGAGACTGGGAAAATTACTGAATGCATTTGGAGGAATGGTTCCACTTAACGAATTTTGCTGGACAGTGAACGCCATTAGTGCTGACATGTTGTTCCAAATAGAACTGGGTATCAGCCCAGTTAAATTGTTAGAGCTTAATGTGAGCCTAGATAAACCAGACATCTTGCCTAAGGATGAAGGGATGCACCAGATAGCCTGTTGTAATCGAGACCAAGAATCCAGAGGTTGGTGAGATTGCCCAAAGCGGGTGGTATCTCACCAGAGAATCTATTGACTCTAAGATTCAGCTCTTCGAGCAAAGGCAAATCGGCCAATGACCGAGGGATCTCACCAGAGAAACCATTTTTCTCGACGTTCAAAAGCACAAGATTTTTCAGACTGGCTCCTATCTCGGTAGGGAACTCGCCTTGAAATTGGTTATCGCTTAGGTGGAGCAAGGAGAGATTGGTACATCCTACCAGAGCAACAGGAATGTTACCTTGGAGAGAATTTGTGCTCAGGTTAAGCAGCCGCAGCCTGCTGAGGCGACCAAGCTCTGGAGGTATCGACCCAACTAGGCGGTTTCATGAAGATCAAGAATCTTGAGAAAGGACAGGTTGCCCAAGAATGGTGAGAGGAGCCCAGAGAGTCTAGAAGATCCCAATCTCAGTGAGATAACCCTCTCAGGGTGCCGACGGCTGCAAACGACTCCTGGCCAGCTGCAGTAGTGGATTGACTTGTTCCATGATGCCAACGAGCCATCGGATGCGAACATCGACTTGAAGGAGAGGAGAGCGAGCTCGTCGGCAGTGGCATTGCTGCTGCTCCATTTTTCATATCGTTGCATATGTGTATATTTATGTCTGAAACTCTGACAAATTAGGAAGCTGTCGCTTTGTCAGTCATTGGTTTTATTTTTCTAGACAACAAGTCACTGGTTGTCTCGCACCAGTCTTTGGTCAATGTTCTTTTCATGAAGATGCATCCAAGAACTACACTCTTAACATTCATGGGAAACCTTCCAAGATAAATTGTCAAGTGGGAAGGCGATACAGACACTGAAAAGCAGCCAATAATTCGGCGCTGCATCACTTCAGCAGTACTCTTTTGAATGATAGGATTCATCCTTTCGCTTTCCAACTGCACAAGCACAGATCCTCGATGCCATCTGATCTTCCTCCGGTGGTTTGCCCGTCGCCAAGAACCACGAAACCCGTCGGCTCTTTGCCGCCTGCTCGCTCAAGCCGGGCTCCAGGGCATCGCCTGCATTCCTATCGCCGGAGAGGGCCTCCACCTCCGCCGCCTCCTACGGGTCCGCCGCATCGGCGTCCGAGAGGAAGTATTCGGATTGGTTTTTCGGACTAGCCGGAGGGGGAATACGGTGGACGGACCGAGGAAGAAGGAACTTAGGCCCTATTAAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.333521
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0104500.1 11 21285209 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
Osa11LNT0104500.1 osa-miR5795 Translation 4.0 20.088 1 22
Osa11LNT0104500.1 osa-miR812t Cleavage 5.0 18.026 1 24
Osa11LNT0104500.1 osa-miR812u Cleavage 5.0 18.026 1 24
Osa11LNT0104500.1 osa-miR5812 Translation 4.5 15.686 1 24
Osa11LNT0104500.1 osa-miR5516b Cleavage 3.0 22.697 1 21
Osa11LNT0104500.1 osa-miR156j-3p Translation 3.5 24.148 1 22
Osa11LNT0104500.1 osa-miR396a-5p Cleavage 4.0 17.606 1 21
Osa11LNT0104500.1 osa-miR396b-5p Cleavage 4.0 17.606 1 21
Osa11LNT0104500.1 osa-miR396c-5p Cleavage 4.0 17.606 1 21
Osa11LNT0104500.1 osa-miR169f.2 Cleavage 4.0 10.055 1 21
Osa11LNT0104500.1 osa-miR444a-5p Cleavage 4.5 14.631 1 21
Osa11LNT0104500.1 osa-miR528-5p Translation 5.0 16.031 1 21
Osa11LNT0104500.1 osa-miR1425-3p Cleavage 4.0 10.292 1 21
Osa11LNT0104500.1 osa-miR1440a Translation 5.0 20.673 1 20
Osa11LNT0104500.1 osa-miR1854-5p Cleavage 5.0 17.782 1 21
Osa11LNT0104500.1 osa-miR1319a Cleavage 5.0 20.778 1 24
Osa11LNT0104500.1 osa-miR2118e Translation 4.5 17.921 1 22
Osa11LNT0104500.1 osa-miR2118g Translation 4.5 17.921 1 22
Osa11LNT0104500.1 osa-miR2118l Cleavage 3.5 17.921 1 22
Osa11LNT0104500.1 osa-miR2118r Translation 4.5 17.921 1 22
Osa11LNT0104500.1 osa-miR2923 Cleavage 5.0 12.674 1 22
Osa11LNT0104500.1 osa-miR1862f Cleavage 4.5 18.487 1 20
Osa11LNT0104500.1 osa-miR1862g Cleavage 4.5 18.487 1 20
Osa11LNT0104500.1 osa-miR812n-3p Cleavage 5.0 18.026 1 24
Osa11LNT0104500.1 osa-miR5149 Translation 5.0 19.673 1 22
Osa11LNT0104500.1 osa-miR5150-3p Cleavage 5.0 16.338 1 24
Osa11LNT0104500.1 osa-miR5339 Translation 4.5 11.736 1 21
Osa11LNT0104500.1 osa-miR5488 Cleavage 4.5 22.032 1 21
Osa11LNT0104500.1 osa-miR5516a Cleavage 3.0 22.697 1 21
Osa11LNT0104500.1 osa-miR169i-5p.2 Cleavage 5.0 16.083 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0104500.1 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0104500.1 11 gw11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0104500.1 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0104500.1 11 qBFR11 Resistance or Tolerance Blast resistance RM209 RM5349
Osa11LNT0104500.1 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0104500.1 11 chs Others Others 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