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

>Osa01LNT0018600.2

CCCCATCGTCGAGAACATCGCCGGGCACGTCCTCGCCCTCAGGTCACTGCCAGCTTTCTCGACCTCCTTGAGCTCAGTGGCTGATGGGGGGATGTAGTCGAAAACCCGGTGGTACCGCCTCGAGTGGCGGTAAAGGCTGGTGCATTTGATGATCGACGAGACATGAACACCGTACTCCAACAGTAAGCTGTGCCCATGGTTCTCGAAGAAGAACACTTTGCATTTAGGTAGCATTCTCTGGAGCCTGTCAGCTTCAGATTTGCTTGGAAGTAATCTGTCAGCACAGCTGACTAGCAGTAGCACTTCAGCTGAAACTGATTCTAGACGGCAATTAGCATATGAAGCAGCCTGTTGGATCAGCTTCATTTTCCATCCTAGAGTGTCCTCCGGTATTTTATTTAGTATGTTCGAATGCTTCAGGAATGATGATATATTACTTGTTAATCTGTTTAGTGCTTCTAAAGGATGTCTTCCACTTTTCATGCTACTCAATGCCATGTCAACTTCATTGTCAATATTGTAGTTCAGAAGAGATGTAATTGCAATCCGTGCACGATCCGACAACGGGCTGGAAACCGACAGGAGCTGTTTTATGTCTGATTTCTCAAATGATGTTGCTGGATTAACCAGTACCAACACCAAATCGATGCAAGGATTACGAGCAGCTACTGCAAGTGCTATGCATCCTCCAAAAGAAGTCCCCAAAAGGTAGATGGGCTTATTAGGTGAAGTGGCATGCTCTGCTCTCACAACATCCTCTACCATTTCAACAAGTTCTGAAAATGAAAAACAGCTTCAAATGGCGTGCGGTCGTGGAAGGGAATGTGCATACATCTTAGTTCAAAAATCCTTCCAAGTGCCTTGTGGTGCATGAAGAGCCCCATCCCCATACCATCTACCCCGGGTAAATACAGCATGAGTGGAGCATCCTCAATGGGTGAGCCGGCATCAACGGGACAGAACAAGCGTGGCGGTCCACTGTCATGTTCTACC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.943715
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0018600.2 1 14746146 G A
Osa01LNT0018600.2 1 14746124 A G
Osa01LNT0018600.2 1 14746670 T A
Osa01LNT0018600.2 1 14745409 C T
Osa01LNT0018600.2 1 14745438 T C
Osa01LNT0018600.2 1 14745557 A C
Osa01LNT0018600.2 1 14745666 T C
Osa01LNT0018600.2 1 14745916 T C
Osa01LNT0018600.2 1 14747372 T C
Osa01LNT0018600.2 1 14747692 G C
Osa01LNT0018600.2 1 14747726 T C
Osa01LNT0018600.2 1 14746315 C G
Osa01LNT0018600.2 1 14746333 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
Osa01LNT0018600.2 osa-miR319a-5p Translation 5.0 21.031 1 21
Osa01LNT0018600.2 osa-miR166g-5p Cleavage 4.5 17.051 1 21
Osa01LNT0018600.2 osa-miR1853-5p Cleavage 4.0 13.746 1 24
Osa01LNT0018600.2 osa-miR2094-5p Cleavage 5.0 20.055 1 21
Osa01LNT0018600.2 osa-miR395x Cleavage 5.0 18.464 1 21
Osa01LNT0018600.2 osa-miR5510 Translation 4.0 20.055 1 21
Osa01LNT0018600.2 osa-miR5517 Translation 5.0 18.439 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0018600.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0018600.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0018600.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0018600.2 1 nan Morphological trait Root RM23 RM306
Osa01LNT0018600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0018600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0018600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
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