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

>Osa01LNT0020100.2

GTTCTTCAATACATATGTGGGTAAGGATGGTTTGTCTAGATTAATAGTAAAAAAGAAAAGGCTGTCACATTAGTTGTAATGGAATGCACTCAAATCCAATCCAGTGAGTTGCTGATATGCCTCAGAATAGCAAGGCTCATCATTGGTTTGATAACATTTGCATAGTCACACAAGCTGTACTACGAGAATATAGTCGTGTGTATGCCAACCTGCGACATTATAGAAAAAGCCTGTCAACCTGTTTAGTCAGTATCAGAAGAAAAATTAACCCTACGGAATAAAATCTTTAAGCATCCTCTCTGCTCAACATTGAGCCTGATATCTGAACATATGACATCTGAGTGTAGCCATTGAAAACTGAGGCATCCAATCTCGCTAGACCAATTCGTTGAAACATGCCAAAACGACCATCTTCGATGATAGGATCAGATGCACGGGCTGGGTCATATCTTGTTTGGTGGGTTAAGGATGGACCAGCAACTGGAGGTAGCTCCCAATACAAATCCAACACGGATTCAACAAGTCTGCTGTTCTGGAAATGCTCTTTGTATGAGATGGCTTTGTTGCTATGGTTGAAATTGTCACGCATATAACCTCTAACTCCCCACCATGCATCATCCTTTCCACAAAGCTCATCTGTTTCCACAGCTTTCTCCCAAAAACTCTTTCGTCTCGACCTTAATCTTGCTTCGTCACTATCCCAAAAGCAGCTATGTCCACCACCTCTGATGTGTTCCTGATCGCAGATCTGTCTTAAGGAGTAATGATCGCCTGTACCAGTGTCATAATTGTCCTCAAATATGATATGTCGGAATCCAACTATTGAAGCCTGTTTTAACCTCTTCAACTCACTTTGGTGATCATCAAAGAAAACAAGCACTCTGCTGAGATCAGAAATGCCATGATTCCTCAATAGCTTCCCCCAATCAACACTTCCGAAGTCAATAAAATCCTTCCCAGCAAGATAAGTGCAGTTCCCATCAACATATGCAGGCCCCTTCTTCAGATATTTCTCAGGGTGTCTGGGTGAGAGTGATATAATCTTAGTATTTGGCATGGCCTGACGCAAAACCCATGTAGAGTGCCCCTTGAATGCACCACTCTCAATCATCAGATCTGGCTTAAGCCAGCGAGCCACAAACCAAAGGCCAAAACTGTGGTCAAAGCCCATTCCATACATGTTGTTCTTGATAGGTCGTGTTTCATATATTGGTACAAATTCTTCCAGTCCACGAAGTAGATCCTTTGAAGTCCACTCCACTATCTTTCCAGTTTTTGATCTGCACCAGGGTACCCCGAGGGCGCCGAAGTCGGAGGCCGCGGCCGCGTCCGGGAGAGCGAGAAAGCGCGCGTCGAGCCGCGGCGGCGGGCAGTCGGCGCGGGGGCGGGCGCGGCCGATGAGGAAGGCGGTGGCGGCGACGGCGAGGAGGAGGAGGAAGGAGGCAGCGGCTCGGTGGGAAGAGTGGAGGCGGGCGTAGGCGGCGGCCACGAACGCGGGGTTCGCCTTTCGGATCTTGGACTCGTCGTCGTCGTCGCCGACGGAGGTGGCGGAGGATGCGCCAGCGTAGGGAGAGGAGGAGGAGGAGGCGCCGGCGGCGCGGGCTGAGAGACCGGTGTCGTGCATGGAGGCGGGACGGGAGCAGAGAGAGATCGGAGTAGTAGAAAGTGGCGGCGGTGGTAGACCGGTGGTATTTGGAGAGAGATCGAGGGACCGACCGTTCCACACGAAGGGAGGGGGTGGGGGGCGTGTTAGGGAAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.993199
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0020100.2 1 17067378 A T
Osa01LNT0020100.2 1 17068592 A G
Osa01LNT0020100.2 1 17068781 C G
Osa01LNT0020100.2 1 17069507 A T
Osa01LNT0020100.2 1 17069638 G A
Osa01LNT0020100.2 1 17070083 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
Osa01LNT0020100.2 osa-miR1869 Cleavage 4.0 14.449 1 24
Osa01LNT0020100.2 osa-miR2918 Cleavage 5.0 23.6 1 21
Osa01LNT0020100.2 osa-miR171f-5p Translation 4.0 12.201 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0020100.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0020100.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0020100.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0020100.2 1 nan Morphological trait Root RM23 RM306
Osa01LNT0020100.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0020100.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0020100.2 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0020100.2 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