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

>Osa10LNT0079400.2

ACAAGACTCAAAATATCAGGTAAATCATCATTGTAATACAGGATTGTTTCACCTCTAAGCAGCAGATCTCATGGACAGCCCCCAAGCAGGTTCATGTCAGTATCTCAGGCGTCATGGTCACAGCTACTGGTCCAGCTTTAATACCTCCACTCGGTTTTTTCCATCAAGCTGTTGTGTGAAGATTTGTTTCATGAAATCAAGGTAACTTATTGATCTGTACTTCACTTTACCATCTTTCACAAACTCCGGCAGAGGGCTGATCACCATATTTTCACTTGGATAGTGGAAGAGTGCTGCTGAAATTCGCTCTTTATTTGGGTTTATCACGGCCCTGTGTTCAACACTTCTGAACTTTCCGTTACTCAGGATCTCAAGTGTGTCGCCAATGTTAGCAATAAGTGCACCATTTGGAGCATCTATGGAGAACCACTTGCCATCTTTCTTGATCTGCAGGCCCTGCACATTGTTAATCTCGAGCAGCAGTGTCAGGCCACCCGCATCAGAGTGTGGCGAAAGGCCCATCACCTTGTCAGCTTGCCGGCATGGTGGGTAATAGGCCATCCTTAAGCCTCGAGGCTGCTCTTCAAATAAATCTAAAAGTGACTCTGGCTTAGCGCCCACAGCCTTAGCCATGAACTCAAACAAGCAGAGTGCCAGGCTTTTAGTCTCTGATGAGTATGCATCAATGGATTGCCTATTTCCAGACATCTCCAGTTAAGAAGAGACAGATGCCTATCAAAAGCTAAATTGCACAGTTTTTTTTTTTTTTTGGTAGATCACCTGAAAGATGCTGGAGAAGTGGGCCAGAACCTTAGGTCCCTTGAATCGCTAGGATGGACATGAAGATACAGCATGTCTGCCCAGTCAAGTTTCTGGTCCTCAGAGAAAACAAAGCTCTGTCCATAGCCTTCTAGGCTATTCGGTAGCTGTGTGTACTCCTTCTTGGTGTCCAGTGGCTGGCTAAAGAAATCAACAATGTCTCTCTTCAGGTTTGCAATCACTTCATCTGGCACTCCATGGTTAATGAGCAGAAAGAACCCCCAATACTGGCAGGCAGATCTCAGCTTCACACACTCCTCTTCTGATGATTGCGGACAAAGCAATTTCTTGAGATCGATGATCGGAATCGCCATGTCACCTTGGTAGTTGTTGATGACCTCCTCAGAACTAGCCTCTGGTCTGATGTACCTTTCAGGTATGTGTTCATCTGGATCATTGCAAATTTCTGCAAGCGCCTGCACATTAGGCACTGGGAGAGAACCAACGGATCTTGCTCCCGCCATTGCAATTCCCAGTTTCTGCACTAAGTGTTTTCTTTTCTTTTCCTTTTTTGGCAAGCAGTTGTTCTAGGCTGTATACTGCATATAACGTGTAGAATATACCATATTTATAGACCTTCAGAAGAACACTCACTTGATTTTATGGTTTACTGTTTAGGTATCCAGGTGTTTACACTAGCTAAATCATGCCTTTTTTTTTTGAAGTAAAAGGTAGAGAGTCTCTACCTTATGGCATTAGAGGAACACATCTATGTCATTAGAGGAACACATCTATGTCAAAAGGGATTTTTTTTAAAGATAATGGATAGAAAAACTGGTGGATATAGATGGCCAACTGAAAGCAACACATACAGTATCAGAGACGGGGAAGGCAGAGTCTCTTATCCTGATATGGCTTCAAGCTCTTCAATTGTAGTACACTATCTTCCATCTTCACGTCAAAAGAGCCCTTGGAATTTTCTCCATCAAGTGTGACTCGCCTGCCATCAGCGATGACTAACCATGGAAAAAAGCAGGGTGATGTTCTCAAATTCCAATCACCTTGTCTGTCTGCTTCAACTGATGTGAACAGCTCTACCATTCCTCTCTCAAAGAAGAAAAGGTTGAATCATGCTACATAACAATCATTCTCTCTTAATTCTAAATAAGAGAACATGACATCCTACGTGCATATTTAGTTGTTGCTGTTTTCAACCTTACCAAATTTTGATATTGCCAAAGTTTGGTAAGGCAACAAACTAAACACACTTCAACCATTACTATCTTATTAAATTTTGGCAGCTCTAGAAGCTTCTTTTCTTAAAACTCTACTAGAATTTGGTAAAGACATCAAACTAAACAAAGCCAACGCTACCGAAATGTAGTAATGCCAAAGTGTGCCAAAATTTAGCATGGAAGATGGTGTACCTAATTTGTTAGTCTGAACTGAAATTCTATTATCGTACAGTTAATTCTTCTAGGCATCAATGTTTATTTTTTGGATGTTTGCATCATAACCTGAGTACGGGCAGTTCCTGATATATGGGACAAGACTCAAAATATCAGGTAAATCATCCTCATAACACAGGATTATTGGACACCTCTAGATATAATAAGCAGCAAATCTCAAGGACACAGCCTTGAAGCAGCTTCATCTCAGTATTTCACTACACTACTACAGGCATCGTGGTCATGGCTGCTATTCCAACTTCAACATCTCCAGTCTGTTCTTTCCATCAAGCTGTTGTGTGAAGAATTGTGTCATGAAATCAAGGTAACTAATTGATCTGTAATTCACTTTACCATCTTTCACAAATTCCGTCAGAGGTCTGATCACCATATTCTCACACGGATAGTGGAACAGTGATGCTGAAATCCGCTCCTTATTTGGGTTTATCACGGCCCTGTGCTCAACACTTCTGAACTTTCCGTTACTTAGGATCTGTACATATCAATAGCACATCACTCACATCAGTACAAAGGTGCAAGAGAGGTAGGCCATCCAACAACAATTTTCAGAAGCTTTTAGGTACGTTCTTTCTTCTTTGGTGCTTCCACAAGTTCTTTTTTTTAGATAATGGAAGCTTTTATTGAACTCATCCAGTTACATCAAAGTTCTTTGACAAGTGAAAGCATAATTAGTTCTTGGTCGGTACCTCAAGTGTGTCGCCAATGTTAACGATGAATGCACCATTCGGAGCGTCTACGGATAACCACTTGCCATCTTTCTTGATCTGCAGGCCCTGCACGTCGTTAACCTGGAGCAGCAGTGTTAGGCCAACCACATCAGAGTGCGGCGAAATGCCCATCACCTTGTCAGATTGCAGGCACGGTGGGTAGTAGGTCATCCTTAAGCCTCGAGGCTGCTCTTCAAATATGCCTAAAAGAGCCTCTGGCTTAGCGCCCACAGCCTTAGCCATGAACTCAAACAAGCAGAGTGCCAGGCTTTTAGTCTCTGATGAGTATGCATCAAGGGATCGCCTGAAAGATGCAGGGGAAGTCGGCCAGAACCTCAAGTCCCTTGAATCGCTAGGATGGACTTGAAGATACAGCATGTCTGCCCAGTCAAGTTTCTGGTCCTCGGAGAAAACGAGGGCCTGTCCATAGCCTTCGAGGCTGTTGGGTAGCTGTGTGTACTCCTTCTTGGCGTCCAGTGGCTGGCTGAAGAAATCAACAATGTCTCTCTTGAGGTTTGCAATCACTTCATCTGGCACTCCATGGTTGATGAGCTGAAAGAACCCCCAATACTGGCAGGCAGATCTCAGCTTCACACATTCTTCTGATGATTGCGGAGAAAGCAACTTATTGAGATCGATGATCGGAATCGCCTCACCATGGTAGTTGCTGATGACCTCCTCAGAACTAGCCTCTGGCCTGATGTATCTTTCAGGTATGTGTTCATCTGGACCATTGCAAGTTTTTGCAAGCTCCTGCACATTAGGCACTGGGAGAGAACCAATGGCTCTTGCTCCCGCCATTGAAATTCCCAAGTTTCTGCAGCAAGTGTTTTCTTTCCTTTTTTTGGGCTAGCAGTTGTTGTAGGTTGCATATTGCATGGATATCCACATATATAGACCTTCAGAAGAACACACTTTGACTGTACGGTTTAGTGTTTATCTTTCCAGGTGTTTACACTTTACACTAGCTAAATTTTAGCATAAGAGGAACACATCTATGTTTAAAGCGATATATATCATAGATGTGGAAGGCAGTGTCACCAACCACCCAATCAACAGACAAAGATCAAGTCTCTGATCCTGACTGATATACCTGCTTCAAGCTCTCCAATTGTACACCATCTTCCATCTTCTTGTGAAAAGAGCCCTTGCAATTTTCTCATCTAGTGTGCCTAGCCTGTCGTCAGCGACGACTAACCGTGGATAAAAGGTGGATGATGCAGTAAAAGTCCCTCTTTCTCAA

Coding Potentia
Explanation CPC Score
noncoding -1.04401
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0079400.2 10 21990277 T C
Osa10LNT0079400.2 10 21992220 A G
Osa10LNT0079400.2 10 21992326 T C
Osa10LNT0079400.2 10 21992900 G A
Osa10LNT0079400.2 10 21993296 A G
Osa10LNT0079400.2 10 21993293 G T
Osa10LNT0079400.2 10 21989317 T 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
Osa10LNT0079400.2 osa-miR5815 Translation 5.0 16.969 1 24
Osa10LNT0079400.2 osa-miR5816 Cleavage 5.0 20.999 1 24
Osa10LNT0079400.2 osa-miR5826 Translation 3.5 21.708 1 24
Osa10LNT0079400.2 osa-miR6252 Translation 5.0 14.069 1 23
Osa10LNT0079400.2 osa-miR167h-3p Cleavage 4.5 21.318 1 21
Osa10LNT0079400.2 osa-miR167h-3p Cleavage 4.5 18.201 1 21
Osa10LNT0079400.2 osa-miR1432-5p Cleavage 5.0 22.977 1 21
Osa10LNT0079400.2 osa-miR1432-5p Cleavage 5.0 18.238 1 21
Osa10LNT0079400.2 osa-miR1428b Translation 4.5 16.345 1 21
Osa10LNT0079400.2 osa-miR1428c Translation 4.5 16.345 1 21
Osa10LNT0079400.2 osa-miR1428d Translation 4.5 16.345 1 21
Osa10LNT0079400.2 osa-miR1428e-3p Translation 4.5 16.345 1 21
Osa10LNT0079400.2 osa-miR1860-5p Cleavage 4.5 12.346 1 21
Osa10LNT0079400.2 osa-miR1862f Cleavage 5.0 17.356 1 20
Osa10LNT0079400.2 osa-miR1862f Translation 4.5 20.158 1 20
Osa10LNT0079400.2 osa-miR1862g Cleavage 5.0 17.356 1 20
Osa10LNT0079400.2 osa-miR1862g Translation 4.5 20.158 1 20
Osa10LNT0079400.2 osa-miR5521 Translation 4.5 12.322 1 21
Osa10LNT0079400.2 osa-miR5340 Cleavage 4.0 22.175 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0079400.2 10 nan Physiological trait Sterility RZ811 RG561
Osa10LNT0079400.2 10 nan Morphological trait Seed RZ811 RG561
Osa10LNT0079400.2 10 qRf-10 Physiological trait Sterility RZ811 RG561
Osa10LNT0079400.2 10 Rf1 Physiological trait Sterility nan nan
Osa10LNT0079400.2 10 nan Morphological trait Panicle/flower RM171 RM333
Osa10LNT0079400.2 10 Qbph10 Resistance or Tolerance Insect resistance RM484 RM496
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