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

>Osa08LNT0415000.1

GGGACTGATGGAGTACCATGTACGATGCAAGTAGGCAGTGCAGGGAGCGATATATCCGGGGGTGGGGGTGGGGGTAAGTGGGCGCCTGGGCGGTGGAGGAGACGCAAGTGTCAATCGGAGAAATTAAAGGCAAAAACGGTCCATGCCAAGCGCTTGACGCGGCCACGAGATCGACGGCCCCCGTCCCCGTACGTCGCGCTCCATCTCCATCAACATCGCTCCCCTCGCCGCATCAGACAAACAGCCGCAGTGCCATTCTTCCTTGCAACCAGTGCACTGCACTGCACTGCAGGGCTACCAAACGACTATAATATTGTTTACGTGGAACGTGCGCTGCTACCTGTAACTGGAGTACATGGCCGCCGGTCACCGTCCACGCTGCCACCTACTATCAAACACCAAATCATATCATCATCCGGTCTCTGCTCCGGTCGGCGTACGGCCGCGCCCGCCCTGGCGACGGTACGCGCCGAGTGTCCGTGCACGGGGCACTGTGGCCGCGTTCGTGCATGACGCGATGGCCTTTTGTCCGTTATCCATGGCGACCTCCTCCATCCCGCATCCATCCATCCATCACACGCCCCCTCGCTCCCCCCGTGTGATCCTGCAGGTTTGTGGGGGCACACGCAAGTAACAGTACAAGCTACTATTCTCTCTCAGTCTTTCTCCTCCCCCGGAGCCTATCCAGATCAAGCAGAGCAGCCACACGGCCGGCCGCCCTGGCTGGTCGATCCATGACTGTGATCAGCTCGATCTGCTTAGGATTGGCAGAGGGGAATAATTTGGAGCAGGGGATCACTCAGGCTGCCTGCCACTTTGGGTTACTGGGCACTGGCTGGTGGTGGTGACAAGGAGAGCTTCTGCTTGACTGCTCTGGACATATCACATACTATGGTTGAGGAATGAAGAACAGGTTAACACAGGTCAAAAAGAGTGTGGTTAGAACTTATAAGAGATGAGGATGGCGTTAGCGAAGGAACATTTGTGTTCTCCAGCTGATTATTCCAGTAAAAAAGATTCCGAAACCGGAATGAATAACAATTAGCTGTTTGAGCAATGATGCTTTAGATGCGGAAGTCCGCTTCAAGGAAGCTGTGGTTGTGTCCTTCGGTGCCAAATTTTCAGTGAGCACAACGCCGTCCAAACTGGAAGGTTGATTTTATTCACTGTTCGATGGTACCGCTTGTCAGGCATGATCATGAGAAAAGAAGTCATCTTCACAGCTGTTGTCATGCTTCGACTTCCTGTACCTTGAGTGATTCTTTTGAGGCGATAACATCCTCTAGGTCTTGTGGCGATAACAGCTTCGTGGAAGGCTTAAACCCTGTGTCATCAGAGAGCACTGCCTCTGGTTCTGTGGGTTCGACTGTGAAGTGGTCTCCGAGGGCAGAGATGATCCCTTCGGTGAAAACGGATCGTGATGGCATATACTCCTTCATGCGACACAAGAAATCTGTGTGGTTCCTCGCCAGTCGATAATCAGGTGCACGTTTTGGGATTTTGAGATAATCCATATTCTTCATATCATAATCCCATAAGAATGATGTATGATGAACCCAACGATCTCTTGTAATGGATTGAGCATTTCCTCCAAACTTCCTTTGACTAAAGGCATAATCATTCTCACGCAGATGAAATTCACCGAAACCATCAAACACCTTGTCATACAACTGACCAGTCCAAGACATGATATCCCGCGGAAATGGCTGCAGTCCAGGAATGGCGGTCTTGCTGCATATGAATGTGGCAAACACTGTCCCCTGATCGACGATGACTGTGCCACCACCACTGAACCTCCTTATAACCGGAACTTTATCCCGGAGGACCGGCTCAATCTCGACAAGCTCCGAAACTCTCCCTGACACGCCCATGACGATGGTGGCAGGAGCCGTGCCGTCGTTGATGATGCACCAGTTATCCCCGGTACGGCGCAGCAGCCGTTCCTCCAGGTGCAGCTGCCGCAGGATCGGCACGCCGCTCATGGTGACCAGCCGCATGAGCGGGCGACCTGCGCCCCTCGCTCCAGCCACCCCAGCGGCCATTCTTGTCTCGGAATGGGCGGCTCACGCTGGGAGTCTCTCAGTGGCGCATTCCGTCGAACAGGCCGCGCGCGCGCCGCAGCTTGGCAGGGTCAACCCCTCCGGGACCTCGACGAGGATGCCACGCAGAGCGCGTGGATAGGGAAGGATCGAGGCCGTCGGCGCCGTGCCTACGGGCGGCCCTCTCGCCGGCGACGCGCACGCGAGGCCGCGAGAGGGCGAAGCCTACCTCCGCCGGCGAGACGGGGAGGGAGATGAGAGAGGAGGACGAGTTTGACCAGATTTCCTCTTC

Coding Potentia
Explanation CPC Score
noncoding -1.088
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0415000.1 8 21167754 A G
Osa08LNT0415000.1 8 21164639 A G
Osa08LNT0415000.1 8 21166100 T C
Osa08LNT0415000.1 8 21166530 T C
Osa08LNT0415000.1 8 21167066 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0415000.1 osa-miR2870 Translation 3.5 17.397 1 21
Osa08LNT0415000.1 osa-miR2924 Cleavage 4.5 19.337 1 21
Osa08LNT0415000.1 osa-miR3979-3p Cleavage 2.5 12.302 1 20
Osa08LNT0415000.1 osa-miR3982-5p Cleavage 4.0 20.31 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0415000.1 8 aro8-1 Physiological trait Eating quality RM223 RM80
Osa08LNT0415000.1 8 Aroma Physiological trait Eating quality RG28 RG1
Osa08LNT0415000.1 8 nan Resistance or Tolerance Drought tolerance RG978 RZ66
Osa08LNT0415000.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0415000.1 8 nan Physiological trait Source activity R727 R202
Osa08LNT0415000.1 8 qCTS8-2a Resistance or Tolerance Cold tolerance RM223 RM284
Osa08LNT0415000.1 8 qCTS8-2b Resistance or Tolerance Cold tolerance RM223 RM284
Osa08LNT0415000.1 8 qPN-8 Morphological trait Seed RM223 RM80
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