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

>Osa04LNT0247400.1

CTTCCTCACAAAAAATAAAATAAAACGTAATTCCAATTCGGTCTAAAAAGTACACAGTTAATTTTTCCAGATAACAGCAGCTGAAAAGTTCAGCAATCGCATCTTAGCACAATTTACAACAATGGTAGGTATGTTCCTACGCACTGCCTTTTGACGCATGTTCAAGAAGGTTCCATACTGCTTTGGTTCTGACTTCTGATGAAGATATCCCTACTCAACCCTGGTTGAGAAGTGAAGATGCAGAACATTAGGGAGCAATCAAATAGATTAACAACCCACTTTTCAGTTTATGCATTTGCATCTATGCTGCTGTAATTGTCTCCTTTTCAACCTCAACATTATTGTCTGGGAGACTCTGCAGTACCTCATACAAGTGCCAAGATATGTAGGCATCTGTAGCAGCATACTGAAGTTGTTGCTTTGAGAGAACATATGCCTCCCAGTTTCCCATTCTTATGTTGCTTGGCTTCGGCAACTCTCTACATGTGACCATTTCAGTTAATGAAGCAAGACTCCATCTTTTAGGAGGGAAACCTAACTTGGCATTAGCAAGATTTGACAGATCCATCAATGGCTGTACATGGACATCATAGTCATTGAACATTTTCCTTGCGTCATTATCTATACATATTCCAACTTTAACGGACGAACTATCCTCCAAAAGAGACTTTAGTACAGGTGGCACTCCGGAGTGAATGATGTGCATGACATAACAACGAGTTCTCTCCATGCATAACTGCATTACAGCAACTTTACATGGTGGATCTCCTCTTCTCGGAAAGGGCCTCCACTCGAGATCGAATCCAAGAGAAACCTGGCCAGAGGCCTTCATGGTTTCAATTTTGCATAAAATGTCCCTTGTGGCTTTCTCCACTTCTGAAGGGGTCCTGCAGTACACTATGCTGCCATTGAACATTACTGGTTGGTACCTTGCCTTCACATTACCTCGGAAAGCGGGAGGAGAGGGAGCCCATGGCGGCGCGGGGGAACAACCCCCGGATGCGGATGCGGATGCGGATGCGGTGACCGGGTTGGGGCTTGGCCAGTCGGGGAGGCGGCGGCGCTTGGCGGCGGCGTAGGCGGCCTCGATGGCCTGCAGCTCGGCCTCCGCCTCGGCGTCCCAGTAGAAGTCGTCCTCCTCCTCCTCCTCTCCGGCATTGCCGAGGGAGGACGAGGCAGGAGGCTCGCCGGAGTTCATGGCGGTCGCCGGCGAGCGATGGGAAGACGGGGAAAAGGAGGAATTTTTTTTTCCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.972031
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0247400.1 4 1835900 G A
Osa04LNT0247400.1 4 1835999 G A
Osa04LNT0247400.1 4 1836188 A G
Osa04LNT0247400.1 4 1836402 T C
Osa04LNT0247400.1 4 1836547 T C
Osa04LNT0247400.1 4 1838077 A G
Osa04LNT0247400.1 4 1838291 T C
Osa04LNT0247400.1 4 1838304 G A
Osa04LNT0247400.1 4 1838368 A C
Osa04LNT0247400.1 4 1838612 G C
Osa04LNT0247400.1 4 1838878 A G
Osa04LNT0247400.1 4 1839286 A G
Osa04LNT0247400.1 4 1837809 A G
Osa04LNT0247400.1 4 1835546 C T
Osa04LNT0247400.1 4 1838278 G 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
Osa04LNT0247400.1 osa-miR812q Translation 5.0 17.717 1 24
Osa04LNT0247400.1 osa-miR5795 Translation 5.0 19.639 1 22
Osa04LNT0247400.1 osa-miR5796 Cleavage 5.0 20.299 1 21
Osa04LNT0247400.1 osa-miR5523 Cleavage 4.0 16.155 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0247400.1 4 qOVA-4 Resistance or Tolerance Insect resistance R1854 C946
Osa04LNT0247400.1 4 qCTS4-1 Resistance or Tolerance Cold tolerance RM335 RM261
Osa04LNT0247400.1 4 qSNP-4a Morphological trait Panicle/flower RM401 RM335
Osa04LNT0247400.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0247400.1 4 nan Resistance or Tolerance Other soil stress tolerance C946 R1854
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