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

>Osa01LNT0032100.1

AGATCCCATCCCAAGGACGACTCAATGTGCATAGCTCCCACATGATCACACCAAGGCTGAAAATATCACATTTCTCTGTAAAGGGTTCGTTCCTTATAAGCTCAGGGGCCATCCATTCTGGGGTGCCAGCAGAGGAGTTGTCAGTCATAGGACTATCAGTCATCACTCGGGAAAGGCCGAAATCACATATCTTGACGGTCCAATGCTTATTCACCAGGCAATTTGCACTTTTCAGGTCCCTGTGAACTATCTTCATGCGGTGTATGCACATCAAACCCCTTTTAAGTAAACAAAACAATTTGTCAGATGAGAATGAATGCTAAAGGAGGGCTATGAGATGATGTCCGCACGACAAGAGAATTATATCAGAATCTTCTGAAAGTTTATATGTAATACCAGCTAATAGGAATATATAGTAGTAATAGTTATTGTACAATGAGAAAGATTTAACCTGCAGATATCACGGACAATTTTCAACCTCCTACGCCAACTGAGCTTCTTTTTCTGACCACTCATATGGATGAGATAGTACAGCGATCCCATTTCCATATATTCTGTTACCATTGACAAGTGTGGTGGTACCATGCATGCCCCAAGAAACAATATAACTACAGATATGGAATTTGCTTTAGAAACTCGTGATTTATGGCATTTGCATGATATCTAGTGCAGAGCTGCTGAGTATTGTAGTTTGACTTAATCAAAGTGAGTCCTTACCATTTGGATGCCGCAGCCGGCTGAAAGGAAATTGTGAAGTTCTCAAAGTTAGTGTGCATATTATGATTAAAAAGAAGGCTGCCAATAATACAGAAGCAAGCATAGTACAGGTACCTCAGGATATATATCTCATTGCAAAAATCCTCCATGTTTTCAGTTGTCAGATCCTGCTCTAGAAATACTTTGATAGCAACATCAGTGCCATTCCATATACCACGGAAAACCTCTCCAAAGAATCCTATTCCAACCCTTGTGCCAATTGTTAGCTCAGAGAAATCTATGTTCCACTCTTCAAAGGGCAATAAAGGTTTATTGAGAAATGGGGAACTCTGCAAAACCTTGTTCCACGCCAATACCATCTTTTCTTTACTTACAAAATCACAAGGATTGATTGTTTCAGAAATTTGCGCCCTATATTCATGAGGAGAAGAAGGCAATGACATAGCTTTCTGAGTGGAACCATTTCGGTTCCTTGGGCCATTGTTGGTAGCAACAACTCCTCCAGATGAACATACATTATTTGGGCAATCACTTGCATTGTTTTGGTCCTCCCCAACATACGAGGGTGAACCTTCATTAACATGGTCCCTTTGGAGGCGATTTTGCTTTAGTGTTTCATTCATAGCCCGAACCGCC

Coding Potentia
Explanation CPC Score
noncoding -1.02665
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0032100.1 1 27695040 A 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
Osa01LNT0032100.1 osa-miR5832 Translation 5.0 23.262 1 21
Osa01LNT0032100.1 osa-miR393a Cleavage 3.5 20.342 1 21
Osa01LNT0032100.1 osa-miR393b-5p Cleavage 3.5 20.342 1 22
Osa01LNT0032100.1 osa-miR171i-5p Cleavage 4.0 13.257 1 21
Osa01LNT0032100.1 osa-miR2918 Cleavage 5.0 8.991 1 21
Osa01LNT0032100.1 osa-miR2922 Cleavage 5.0 15.901 1 20
Osa01LNT0032100.1 osa-miR2932 Cleavage 4.5 8.946 1 19
Osa01LNT0032100.1 osa-miR5157a-3p Translation 4.0 22.781 1 24
Osa01LNT0032100.1 osa-miR5157b-3p Translation 4.0 22.781 1 24
Osa01LNT0032100.1 osa-miR5793 Cleavage 5.0 21.789 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0032100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0032100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0032100.1 1 QPh1b Resistance or Tolerance Submergency tolerance RZ527 RZ154
Osa01LNT0032100.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0032100.1 1 nan Morphological trait Seed CDO118 CDO455
Osa01LNT0032100.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0032100.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0032100.1 1 yld1.1 Physiological trait Source activity RM5 RG462
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