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

>Osa01LNT0013600.1

GTCGAATTCATTCTGGTATTGAATATTTGCATACTTCGTAACTTTGAGCACTACATTCAGTTTTTTTTTCCCGATGGTGTGGATGTAGGACTAGACCGGATGTAGGACTAGACCACCCAAGTTTAAGACCTCGTTGAGGAGAGTTTTTTATTTTATTTTATTTACAAAAGCATTGCTGAATCACTGAAACATGGTGAATTCTAACAAGCAAGGCCTTGCAACGAGAGGATCAAGAACTTACTGCTTAGCAGAGTGCTGCCTGAGCGTGATGTCAAGAACCCTAAGAGCCTCCATCGAGTTCTCTGTCTCCTGCCCTCTTAGCACCTCGGCAATGGCGCTCATGGGGTCCTTCGCCGCGAAGGAGATCTCCACCATGAACTTCTTCACCGCCATCGGCCGCTTCATCCTCTTCCTGTCACTCCCCCCAGGGCTTCCATCGTCTCCTCCGGAGCTCCGCCTCGTCGTCGTCCTTCCAGATGAGGAGGCGTCCTCCATGACGACGACGAACTGGTGCTTCGTCTGCAGCAGAGCTCCGGCGGTGAAGAGGCCCTTCTCGCCGTTGTAGGCGAACTCCCTGCCGGCGAGCTCCGACGCATAGGTCTCCTGCAGCTTGTCGACGACTCGCCGGCACACGCCTTTCGCCTCCACGGGGCCGCCGTCCTCGTACTTCACCTCCACGTGGTAATGGTAGAAGTGGCCGTCCATTCGCCGGACAGAGACTCTGAAGTGGTTCGTCAAAAGCTGTATCGACTGCCCTCTCGTGCCAAACCCTTTCCTCGACATTGGAAGCTTCTTGGGTGGCTTGGCCATGGCCGAAGGTTCGCCCTCGTCACCATGAGACTCCATCCAAGCTCAGCTCAACTTGTAACTTGGTGTGGCCGGACTCCAGAGAGAGGACTGTTCTGGCAGTGCAAAACCCCCTTCGTCTTCAGCAGGAAGAAGCGAAGAAGGAAGCTTAAAAGGACACGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.683032
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0013600.1 1 9627131 T C
Osa01LNT0013600.1 1 9627520 C T
Osa01LNT0013600.1 1 9627977 A G
Osa01LNT0013600.1 1 9629393 A G
Osa01LNT0013600.1 1 9629632 C A
Osa01LNT0013600.1 1 9629327 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0013600.1 osa-miR1429-3p Translation 4.5 16.883 1 21
Osa01LNT0013600.1 osa-miR2876-3p Translation 5.0 17.737 1 21
Osa01LNT0013600.1 osa-miR5339 Translation 5.0 12.523 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0013600.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0013600.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0013600.1 1 nan Resistance or Tolerance Insect resistance RM576 RM3412
Osa01LNT0013600.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0013600.1 1 An9 Morphological trait Panicle/flower nan nan
Osa01LNT0013600.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0013600.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0013600.1 1 nan Physiological trait Source activity RG532 RM472
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