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

>Osa01LNT0021800.1

AATTTCTAATATATTGAAGGGATGATATTTGAACATTACAAGCTCTTGGCACACTAACCACCACCACCACACACTTCCCACAATGGCATGTTACTTTCTGAATCACAAAAGAAAGCAACAGAAACAGCCATACATAGCTTCAGGTAGCCTTAGCCTAAGCTCACAATCTCACATTACTCAACCTCATAGAAACTTCAAGCTTACTACCAAAACTAGTGGCCTCCTCATACTTACAGAAGAGGTTTATATATCTTTCGACCACAATCACTAAGAGATTCAGAACAACATCAGACTGACAATGCTAACAATGCCAAGCAGCAGCCCAATACTTGCCTTCAACCCAGCAGCTCCATTCAAGCCCCAGACGCGCACATCATCGATCACTGGCCCACAGAGCGAGCTGTGGTCGTCGCTTCTCGTGTTGTAATACACGCTGTAGAACGCCACTCGCGTCCTCTCAGCTCGTGCTGTGAATGTCACATTCGCAGCCTGGCTTGTGGCATTACCCATGGGCGAGTAGTGGAAGTTCTGGGCCTGGTCACCTGCGAATGCCATGACAGCCATTGGTGGCTGGCATGAATCCCCTGCTGAGCCCAATGTGAATGTCAGGCTGTACTCTTTCTGAGGGGTTGTCTCGACCATCTGTGAGATGATGCCTTCCTTCCCTGATAGAAGCTCAATGGCGCGCTTCCCTTGGGGAATGGTGTACTGGTCAGAGTCGACAAAGCGGACAGCTCGATTTGACTCAATCATCCAGCCAGGCAAGGCAGACGTCTGCTCATCGAGGTTGGTTGGGAGAAGCACCCCAAAGCTCGTGTTTGGAAACATCCATGGACCCTCCTCAAAGTCTCCATTCGACACCACATTATCCTTTGGTTTGTCTGGAGTGAAGAGCTTCTTTATGGCAACGTTGTCAAGGATAGGCCCACAAGTCGGATCATCCTCCATACCAGGGTTCCTGAACTCAAGGCTCGCCTGCTCATCTGTTGCCTGAAAAGCCAGTGCATATGCATCCCAGCCTTCTATGTTGTACAATGTCTGCAGGTCCACTGTCTGTGATGCACCACCGAGCACAGACACATTGAGTGACTCTAGCTGTGCACACGTTCAGGCAGCACTGAACGTGATAGCATACTCTGAGCCCTTCTCAACCTGCACCACCTGCCCTATACTTGCATCGTTTCCAAGACGTACAGCATGATCCCCCTGTGGAACAATAAGAATCATGCCACCCTGGTGCTGGCCTGCTGAGATGAGCTCGACTGTCCCATTGATCGTCCAGCCAGGGATCGATGATGCACCCTCAGCAACTGAAGCAGATTTGACAAAACCACCAGCTGGTGCTGTCTCAAAGTCACCATTGCTGAGCAAGCCATCCTCCACCGCAGCGGCCGAGGCCAGATGGGAGGGCGCCAGCAGAAGCAGGCCCAGGCACAGCCCCAGCAATGCGAGCCTCCTCGCCGTATCTCCCTCCATCTCCTCCTCCTAGCCGCCTCGAGCTCTCGCCTCCTCCTTCCCCCCTCGCCGAGGAAGAAGAACAGTGGAGAGAGTGAGCCGAAGTACAGTGTGTGTGCAGCTGACCGAGTGAGCGAGCCGAGCCAGCCCTACTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.815871
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0021800.1 1 19130032 A G
Osa01LNT0021800.1 1 19131002 T G
Osa01LNT0021800.1 1 19131014 C G
Osa01LNT0021800.1 1 19132074 A C
Osa01LNT0021800.1 1 19132548 A T
Osa01LNT0021800.1 1 19133810 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0021800.1 osa-miR5791 Cleavage 5.0 24.946 1 21
Osa01LNT0021800.1 osa-miR1319b Cleavage 2.5 9.682 1 20
Osa01LNT0021800.1 osa-miR5836 Cleavage 4.0 19.295 1 21
Osa01LNT0021800.1 osa-miR171d-5p Cleavage 3.5 14.97 1 21
Osa01LNT0021800.1 osa-miR171e-5p Cleavage 2.5 14.97 1 21
Osa01LNT0021800.1 osa-miR5077 Translation 4.0 23.525 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0021800.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0021800.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0021800.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0021800.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0021800.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0021800.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0021800.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0021800.1 1 qNVB-1-1 Morphological trait Culm/leaf R2159 C178
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