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

>Osa12LNT0115600.1

GGCATTCGTTGATGTTTTCTCTTTTCATAGTAGAACAAAGCAAATTACCGATTGTTCTGTTATAAAAATGGACAAACTACATATTTTCACCGTTCCAGCTCCCCATTCTTATTCCCTTCTGCACCGGCCAAAACGCTGAACATTACAACTGTCGTTTGTTCATGGCGCTGTAATTCCTAGTACAAATACATTTTTACACCTCTCGCAGGATAAACTATTAGTGGCTTGCATCAGGCGCGCTGCTTCTTGCCACTAGGTAGATCATCATCATAATGCCCACCATCATCCCCTCCATCTTTGTCACCTTTCTTCCTCGCAAGTATCTTGTTAATCTTGTGTAGGTCATTCGTGAGCTTCTGGTCCTTGTTCTGCTTCCTCGTCTTCCTGCCATCCTGCATCTTCACTCCAAACTGGAATGCAGCTTTCGGCATCGCTTCCTTCTGGTCGTTGTATTTGGCCCACTCCTCTTCCGTCTCAAAGTCCCACCTATGAAGACGCCCCTTAGCCCGGCCACCCATGTCCATCTTCGACAAATCATCTTCTTCATCGCTGCCTGCAATCTCATGATTATACTCCTGATAACCAGGATAACACTCGGAGTAACTATCTGAGATAAAATTAGGATCTTTCTCCCGTGAATCTTTTTCCCTCAGCTGCTTAAGCCTTTCATCATCACGTTTGAAAACAGAACCAAGACCTCTATCTTTATCTGCTTGAGTCATCAACCTTGGATCCTGGGCTATATTTGGATCAGCTAATACATCATAGTCCTGAGTGCTTTGTTGCATGTACTGTTCTGGATAAGGCATCTGTTGTTCACCATACTGATAGCCTGACCACTCCCCTTGATATCCAGCAGCTACCATTTGAGCTTGAATAGCATCGTATCCATTCGTTTGTGGCCAAGCTTGAGCAGGGTCCGATGGTGGGATGGGCCCATAGACAGGTTTCTCTTCAGTGAAATAGGACTGCTTTTGATGGTTATGTGGGGACTCATCCATATCTTCAGAGACAGGGCTATGGCTCATTTCCTTGTTAGGAACAGAATAGTCAACTCCATCTCCAACAAAAATGTCATCTTCATCTGCTCTAGCAACAGGAATAGACTGTTCCTCATTCTTGCTTAAGTTATTATTTCGAGGGGGTGGCGGCGGCGGCATGTCCTTTTGAAATTGATGTTTCAGAGAAGAACCTGTTTGGCCAGGTCTGGCTACCTCATCATAGTCACCACTTGCTAAACTGTTATTCCCTTTTGTGTCCCTCTCCTTTTTCTTTTTCTTCAAGACTTTCCCAGATGATCCAAGTCGAAGGTATGACATGATTTTAGCAATCCTATCAAGTACAGAACCATCCACACTGACAGTTACCATCTCCTCTGGAACAGCGCAATCAGCTTTGCTCCTGTGAAGAGTTGTTGGGATATCATTGGTAAGTCCATCCTCCATGTTGTAAATAAATGCCATCCGACCAGGAAGAAACATTTCATTCTACTTTATGATGCTTTGTGGCTTTATGATCCATTTATAGACAGACTTTGCAGTTGCAGTGCGGAATGAGACTGCCTGATCTTCTTTTGTTGACCTTGTCTGTGTATCCTTCCCATCCTCTGCATCAGGCTTCTTTTCTATTTCACTTCGTACTTTGTGAAGTAGAGCATAGTCCAAACCTTTGACCAAATGTGTATGTTCCAAATCACAAGGAAAGAGTATAACACTGTTGCACTACCAACCTCCAAGATATTTGCTTTTCTCAATAGATATCTTGTGTACATCTGCTAGCCTTAAATCTGCTCCGGGAGGTGCCACAGCATGAAATGAACCAAGCTCTGTAGGTTCATAGTCAAGGTTTTGATCTTCACGGCACTCCTTAGCACGATCTCGATACCTAGGTGTCTCTGGTTCTTCCTTTTTCTCCTCTTTCCGCCGCATCAGCTTCTCCTTGTAGTAGTTCTTCTTGGACGACATCTTGTCCAATAAGC

Coding Potentia
Explanation CPC Score
noncoding -1.29582
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0115600.1 12 2131152 G T
Osa12LNT0115600.1 12 2134036 G A
Osa12LNT0115600.1 12 2129420 G T
Osa12LNT0115600.1 12 2134578 T C
Osa12LNT0115600.1 12 2131781 G A
Osa12LNT0115600.1 12 2132005 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
Osa12LNT0115600.1 osa-miR5544 Translation 3.5 13.622 1 22
Osa12LNT0115600.1 osa-miR5821 Translation 4.0 6.33 1 21
Osa12LNT0115600.1 osa-miR5837.1 Translation 5.0 24.649 1 21
Osa12LNT0115600.1 osa-miR818f Cleavage 5.0 12.469 1 21
Osa12LNT0115600.1 osa-miR418 Cleavage 3.5 11.349 1 21
Osa12LNT0115600.1 osa-miR2102-5p Cleavage 2.0 22.141 1 20
Osa12LNT0115600.1 osa-miR5071 Cleavage 5.0 14.26 1 21
Osa12LNT0115600.1 osa-miR5080 Cleavage 5.0 12.703 1 21
Osa12LNT0115600.1 osa-miR5151 Cleavage 4.5 19.8 1 22
Osa12LNT0115600.1 osa-miR2928 Cleavage 4.5 11.313 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0115600.1 12 gy12 Morphological trait Seed RG869 RG98
Osa12LNT0115600.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0115600.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0115600.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0115600.1 12 nan Physiological trait Eating quality RM20 RM101
Osa12LNT0115600.1 12 Pi-4(t) Resistance or Tolerance Blast resistance 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