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

>Osa01LNT0031600.1

GTCAAGTTATATATGTGTACACATGTAACAATAATGAACACTGTAAGAATATCGACCCCCCTACGCTTCAACATCTGTGCAGCAACTCACTCGACACACTCCTTATTGTCCAGTAATACGTACGTAGACGGTTTAGTAAACTCCTTTTTTTTCACTCGATGCAAATTACACCATGCTAGCATGCATGATGCACATTTGCCATCATATACCTGCCCTGCCCTCTCCATCTAACCTATATATATCATCAGTCAAATATGTTTAATTTGCTTTGTTTTCTTCCATCCATCAGGGGCCAAAGCCTGCACCTCCTGTGTGCACCTCAAAGTTAGGCATCGTCAAATGAGCAGAAGCAGCCGCCCTGTTGTTAGGAGCCGCCTGGCTGTAGCCGATTAGCGCCGCCGCTGGGTTGTAGAAATCTACAATGCCTGCAGCTTCCTTCAGCATGCTGCTGTTGTTGCCACCGTGGCCGCCGCCGCCGACGCCGTCGTTATGGTGGTGTTCAGCAGCAGCATTGCTAGCCTTGATGTTGTTACCGGCGACGAGGTCGACGGAGAGGTCCTTGGCCGTCGCTGCCGAGCCGCCGCCGCACTGCCTCGGCTGCGTCTGGTAGAACACCTTGGACACGACGAGCTCGCCGTCCTTCTCCTCCTCGTCGGAGCCCAGGTGGTACTGGTGCATCACCCAGTTGGTCTTCTCCGGCTTGCGCTGCTTGCCGTAGTTGGTGTAGAGCACCAGGATCTTCTTGTACCCCTTCAGCTTGCCGCCGGTGAACACCGGCCGCGTCTTGCCGGTCTTGTGCCACCGCGTCTCGCCGCCCTGCTCGTCGGTGTGCACCTTCCGCCGCTTCCGCGTCCCCGTCGTGTACGCCTTCGACGGGCGGTGGAAGAAGTGCCGGATCAGGCCGTCCTTGCCGACTCGTGCATGCATGCAACAGCAGGTCAGCAACACAACAAGAGTGGCTTCGTAATCGTAGTATCCAGTTGACCAGTTCCAATGTCCTGACGGCTGACGGCTGACGCAGCATAAGACCATTCAGTCAAACTATATGACGAATGGGCCCAGTTAATGATGGTTTTGGGCCGACTCCAGCAATTCTCTGATTCTATCTCTCTCCCCCTGAACTGTTATTGTTTAGTTATTTTTTGCGTCCTTTCCATCATAAGAAAAATACTTGCTCGGTGTTTCAATACATATTCTCTCTGTTCCAAAAATAAATTTATTTTACACTCATCCCATATGTACCAATATAAAACAAAAAGACATACCCTCACTTTATCAAATCTTAATGCAATTATTCCTCATTTTACCTACATTCCAGTGCATCTATTATTTACTTTCA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.508393
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0031600.1 1 27556729 C G
Osa01LNT0031600.1 1 27557198 G A
Osa01LNT0031600.1 1 27557328 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
Osa01LNT0031600.1 osa-miR5819 Cleavage 5.0 21.996 1 21
Osa01LNT0031600.1 osa-miR437 Translation 4.5 7.242 1 21
Osa01LNT0031600.1 osa-miR1439 Cleavage 2.0 8.568 1 21
Osa01LNT0031600.1 osa-miR2097-5p Translation 5.0 7.897 1 22
Osa01LNT0031600.1 osa-miR5161 Cleavage 4.0 8.547 1 20
Osa01LNT0031600.1 osa-miR5161 Translation 5.0 14.649 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0031600.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0031600.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0031600.1 1 yld1.1 Physiological trait Source activity RM5 RG462
Osa01LNT0031600.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0031600.1 1 QPh1b Resistance or Tolerance Submergency tolerance RZ527 RZ154
Osa01LNT0031600.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0031600.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0031600.1 1 nan Morphological trait Seed CDO118 CDO455
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