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

>Osa01LNT0028000.3

AAAAGGCTTGGGGGTTACCAGCTTAAAAGAAAGCTACTAAGAGATCTCCACCTATACCCAAAAGCTTAAACATTAAGCCAACACAATCCTATCCAACAGACTGAAACCTTAGATCACTCTGATCATATGCTAGCTAACATTCCTTACATAGCTTCCACTTTTTCAGCTACAGAACAAAAGGCCACACTTATCCCTGTCCACCCGTCAAGCAGAACAATGCTCCAGGACTTGGAGAACTCCATGCCAACGCCATTTCTAGCAAGCTCGAGGCATTGTCCACCTGAACCAGTGAACCACCACCACACCGGGGACGTTGCCAGCTACACACTTCAGGCCCGCTCCGCCATGCGCTCCTCCTCTCTTCGCCAGATCTGGCCGCTGCAAGGTAGATGCCACCAGATCTGATTGAAAGCCAGATCGACCTACTCGCTAGCTCGAGCCCAGCGGCATCGGCAGCAAGAAGAGAGAGGAAGTGGAGGACATGCGGCGAAGCATGTGGCGGTGTCGGGGCGAGGTTAGGTGCTGGAGGATGGAGCGGCGGCGCAACTGCGCAGGGTGTCGGTGTGGCGGGGAGAGGCGGCGCGAGGAGGGGGAAGCGACGCACCGTCACGGGAGTGGTGGCGGCTAGGGTTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.985441
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0028000.3 1 25019369 A G
Osa01LNT0028000.3 1 25020472 T C
Osa01LNT0028000.3 1 25021030 A G
Osa01LNT0028000.3 1 25021194 T C
Osa01LNT0028000.3 1 25021327 C T
Osa01LNT0028000.3 1 25021462 T 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
Osa01LNT0028000.3 osa-miR166h-5p Cleavage 5.0 12.472 1 21
Osa01LNT0028000.3 osa-miR529a Cleavage 4.5 20.59 1 20
Osa01LNT0028000.3 osa-miR444d.3 Cleavage 4.5 16.1 1 21
Osa01LNT0028000.3 osa-miR2097-3p Cleavage 4.0 19.743 1 22
Osa01LNT0028000.3 osa-miR2097-3p Translation 5.0 19.168 1 22
Osa01LNT0028000.3 osa-miR2103 Cleavage 4.5 24.038 1 22
Osa01LNT0028000.3 osa-miR5077 Translation 4.5 15.923 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0028000.3 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0028000.3 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0028000.3 1 nan Resistance or Tolerance Drought tolerance RM129 RM5
Osa01LNT0028000.3 1 nan Morphological trait Root RM23 RM306
Osa01LNT0028000.3 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0028000.3 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0028000.3 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0028000.3 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