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

>Osa05LNT0313300.1

CCGTTTTATGTACAACAACAGAGCATCATACATTCACCCTAGCGTTCAACAAGGTCTACAGAGGTTATTACTTCTAGTTGCTACTCTTTGCATATGCACAGCAACACAAGCTTGTTTACATTGCATTGTAAAAAGACAATGAAAAGAATGATATTGCAAGCACTGCCATGTATGCGCATTGGGGCAGTCGGGCAGCATGGACAGACAGACCTCAAACCTACCAAATTCCTAGGAGAACCGAAAGCATGCATCTTCAATCTTTCATCAGGTAGGATATTCCGCGAGAACCAACGTGTGCCACCAACCGCATGAAACGTTTAGCGGGTTGTACGCTTCCACGGGCACTTGGCATGGTACGTTTCTGTCTGTTGAGTCGCCCAAACCAAGCTGACCGTACTTGTTCCAACCCCAGCAGAAGACATCTCCTTTATCTGTTATGACTGCACTGTGTCGGGCTCCACACGAAACACCTCTTGCATGATTATTTTCCAATTTCGAGGCTTCTACCAACTTTGGAACAATCTCAGCTTGATCTGATCCAGTTCCCAGCTGCCCAAACTGGTTACCTCCAAAGGAATATACATCACCATCAGCAGATGTACATACAGTATGCCATAGCCCAGCTGCTACACGTTGTATCTTCACTCCCATAATAGCCGAAACACACGTTGGGCTTAAAATATCATCCGTGTTCCCTTGTCCACACTGTCCATATAATCCCCATCCAAATGTAAGAAGTGTTCCTGAATCTGTCACCACAGCACTATGACGGCCTCCACAGGCAATTGCTTTCACGCAAGTTGCTGCTCTATCATTTGTTCCTTCCAAAGTTCTGCTACCCATCACAATTCCTGTACGGTCCTTGCTGTAGAACGCCGATTGAACACAAGGTATGGGATGTGGGGAGGAAACTGTCCGGATCCTAGAGCCTAAACCTAGTTGTCCTTCCCCACCATAGCCCCAACCCCAGACCTGACCAAAATCTGAAGCTGACAGCACTAATGTATGACGGCCACCTGCAGCTACTTCCACTATCTTCACTCCTGTATTAAATGTCACAACACAAGGTGGTGCTGAAAGATTTTCATCACTAGATGATTCACTTTCAGCCCCGTGTTTCGATGAAGATAACCTCCGTCGCTTTGTGCTATCCTCAGAACTTCGGCTTTCAGCAGGACCAGATGCTGCCTTGGTGCTTGTCCTAGACACCTTTGACCTGGGGCTCACTTGGTCAGTGGCAACCCCACTTTGCCTTTTATCACAATCCATAGCCCCAGTTGCAGAATGGTCTGCAATGACCCTTCCAGTTGGAACGCATTCTTTCCAACCCCATGTGTAGACATCACCTTTACCTGTTATTGCAACACAATGTGCCCATCCAGCGTCAGCCCTTACAATTGCAATATCACTAGGAAGAGGAAATGCCTCCGGAGTTTCCTCATGCTTCCCAGCAGTCACGTAACTTTGTCCCATATCATCGGTAGAGCCCCAAGTGAAGAGTTTTCCTTGCTCGGAGACGGCCATCGCGAAGCCGCACCCGCCGCCGGCCACATCCCTCCACGCATCACCGGCCGCCGCGGCCGCGTCCGGCATCCTCACGGGCACCGGCCCCAGCAGCGGCGACCGCTGCTGCGACACCCCGGGCAGGTACCCCCACATCAGCACCACCCGCTCCTTCCTCCTCCCCGCGCCTCCCCCATCCTCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.986467
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0313300.1 5 22441836 A T
Osa05LNT0313300.1 5 22442480 A T
Osa05LNT0313300.1 5 22443778 G 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
Osa05LNT0313300.1 osa-miR5837.2 Cleavage 5.0 24.884 1 21
Osa05LNT0313300.1 osa-miR160f-5p Translation 3.5 22.043 1 21
Osa05LNT0313300.1 osa-miR1858a Translation 3.0 7.052 1 21
Osa05LNT0313300.1 osa-miR1858b Translation 3.0 7.052 1 21
Osa05LNT0313300.1 osa-miR2926 Translation 5.0 13.302 1 20
Osa05LNT0313300.1 osa-miR2870 Cleavage 4.5 16.376 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0313300.1 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0313300.1 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0313300.1 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0313300.1 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0313300.1 5 APAGE1 Physiological trait Eating quality nan nan
Osa05LNT0313300.1 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0313300.1 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0313300.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0313300.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0313300.1 5 nan Physiological trait Eating quality RM163 RM31
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