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

>Osa01LNT0038500.2

GCTCTAAGGAATGATATCATAAATCAGTACAAGGACTACAAACTCCGAGGAAACTCTTGTTCTAGAACAACATGGCCTTGTATAACATGCTAATCGTGCTAATTAAATCTGTAATGAGCTAATGTTTTACATATTCTACATCTTCTAATGTGGCAATCCATGACTTCATGGCACAAAACTGAATCTAACTAGTCAGTTACTTCTTATCAGTTCATTGTTCTAACCTGCTTTGATGAAGCAGGCATGAATAATACCAAAGGAAAGCTCTGAACTACACAAATTCAAGGTCTCCACAAGCTGCTTCGTCCAATACATTCCTGTCCAGGCCTGCACTTGCCGCTTCTTCCAATTCACTATCTACATCCATGTTTTCTTCCTCTTCCACTTCATCTGTGCCAGCTTTTCTCATTGGTTCTTCAATTTCGTCTTTTGGGTAGACTTTTACTCTGATGCGTTTGCCTTTGATGCGTCGATATTCCCATTTTGGTGGTGGATATTTCTTCTTTAATTTTACATATTTGTCCAACATCCCTAACTTCTGGAATACCTCACCAAGCATTCTGATAATCGAACCGTCAGGTCTAACACCCAGCTCCTCCATATCAGCAAAGATCTCAAACATCTTCTGATATGATTCTAGTCTGTAATATAAAGATATCATTCTCATGAAAAAGGTATGAGGCAAACCCTCCAAATATCGTGAGAATATTTTTCCATACAGCTCTTCTGCTTCCTCCACTCGTCCATCCTCAATCAAAGCATTCAACAAAGTGTAATAACTTCCCATTGTCTTTCCTTGACCTTTGTTAAACATCCATTTAATAACCTGAATTATCCGTTTCCATTCCTTTTCATCTTCAAGGGTCTTAAGTGCCTTCTTTACTGCTATCAAGGGAAACTCCAATTCCCATGCAACAAATGAATCAAGAGCACCATATACTTCCTCCTTTACATTAGACAAGCCTTTAACCTCACACATTCGACAAGCTTTTGAGACTTGGAAACGGTTCCGATTCTCTTGCGAGTTTTCCACACACGAGGATATCTTGGCCTCGGGCCCCTGGCACCACATACCACTAAAGTACTGAACTTTGAAGGATGCGTAATGGCAGCCCTTTCCAATCCAAAGGCGAATGCAGGCGGCCCGCACCTCACAGAAAACATCGTGTAACCTTGTAAGAGGGGAGGAGCAGTTGCCGCCGTCGCTGGCCTCGGTGAATCCGTGCGCCGCGGCGGCTTCGTTCTCCGCGGGGCGTAGAGTCCGGGAACGGGAGGAGGGACGCAGCCGCACGACCGC

Coding Potentia
Explanation CPC Score
noncoding -1.01589
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0038500.2 1 31827598 T C
Osa01LNT0038500.2 1 31827834 C G
Osa01LNT0038500.2 1 31827709 T A
Osa01LNT0038500.2 1 31828219 A G
Osa01LNT0038500.2 1 31829316 G T
Osa01LNT0038500.2 1 31830167 A G
Osa01LNT0038500.2 1 31828340 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
Osa01LNT0038500.2 osa-miR1440b Cleavage 4.5 16.816 1 21
Osa01LNT0038500.2 osa-miR6251 Cleavage 5.0 15.318 1 21
Osa01LNT0038500.2 osa-miR159a.1 Translation 4.0 20.968 1 21
Osa01LNT0038500.2 osa-miR159b Translation 4.0 20.968 1 21
Osa01LNT0038500.2 osa-miR2879 Cleavage 4.5 13.404 1 24
Osa01LNT0038500.2 osa-miR5523 Translation 4.5 15.553 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0038500.2 1 gpy1 Others Others RG541 RG101
Osa01LNT0038500.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0038500.2 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0038500.2 1 qCC-1 Physiological trait Source activity RG541 RG101
Osa01LNT0038500.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0038500.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0038500.2 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
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