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

>Osa01LNT0014600.2

GATCCTTGGATCTTTTAGAATTGCTCTTGCTATGGCAATTCTTTGCTTCTGCCCACCAGAAAGCTGAGTCCCATGTTCACCAACTGAAGTATCAAGGCCCTGAGGCATTTTATCTATGAATTTAGAGGCATTCGCAAGCTCAGCTGCAGCTCTAATTTCTTGATCCGTTGCATTGTCTTTGCCATAAGCTATGTTTTCCTTTATGCTAGCAGCAAATAGGACTGGTTCTTGGCTGACAAGGCCAATTTTACTTCTGATCCACCTAAGCTGGAATTCCTTGAGATTCACACCATCTATGAGAACATCACCAAGCTGAGGGTCGTAAAACCTTTCGATTAGGCTGATAACCGTTGATTTACCACTCCCACTCTGACCGACCAATGCAACTGTTGTGCCACTGGGTATGGAAAGGGAGAAACCTCTGAATATTTGCTCATCAGGCCTAGTTGGATAGGAGAAATATACGTCCCTAAACTCAATATCCCCTCGAATGTCATCGGGCTTCATTCCTGTGGTGCTGTATGCATCGATCTCTGGTTTTCTGTTTATTGTCTCGAACATTTTGTATGCAGCAGCCTGCCCACCTGCAAAAGCTTTCATGCTTGGTGATGCCTGCCCTAGTGCTAGAGATCCTGTTAGCACTGCAAAGATGACATTCATGACCTTGGCGCCGGTATATCCCTTGAGCAAGATGAGCTTGGCACCATACCATATCCCCAGCGAGTAGCCGCAGAAGAGGAGCACCATGACCGTGCCCATGCCAAGCCCGGCTGCGAGGCCCTCCCGAACGCCTGATTTGTAGGCGCTTTTCAGGGACTTGTTGTACTTCTCCACTGCCTGCTTCTCCCCGGTGAAAGATGCAACTGTTCTGATGGATCCGATGGTCTGCTCCACCACCACCGACGACTCGGCGTACGCCGCCTGGCCGAGGGACGCCATCTTTGCGACGACGTTGGACATGACGGCCCCCGCGACGACGAGCGGCGGGATGGTCGCCATCATGACCAGGGTGAGGAGCCACCCCTGCGCGAAGGCGACGATGAATCCGCCCAAGAACGTCACCACCAGCTGAATGAACTTGCCAACCTTCTCGCCCATGGCGTCCTGGATGAGCACGGTGTCGCCGGACATCCTGCCGACGACCTCGCCGGTGTTGGTGTACTTGTCGAAGAAGGCGATCTCCTGCCTCAGGATGGTCTTGAGGTACAGGTTCCGTATCCTCGCCGCCTGCCGCTCTCCGGTGATCATCCAGCATGTCACCTGGACGAAGGAGGCGACGGCGGAGGCGATGGCGAGGTAGATGAACTCGAGGGAGACCATGGACACCCGGTTGACGACGTCGTGGATGCCCATCGCGCCGCCGAAGGCGTCGATGAGGTTGCCGAAGAGCACCGTCATGAACGGCAGCGCGGCGCCGTTCGCCACCGCGCCCAGCGTCCCCAGCGCCATCAGCGCCGCGTCCGTCTTGTCCGCGAACGCGAACAGCTTGTGGAACGGCACCCGCGCCGACGCCGACGCCGACGCCGCCCGCTCTCCCCTCGCCACCGCGGCGCCGCCGCCGCCGCCACCGCCCTTGCCATTCCCCGGGCTCGAGTCCGCCGCGGCGACGGAGGCCGACGACGACGCGTTCGCCTCCGCGTCTCTCCAAGACTCCGGCATGGCCTCCTACTCTCGCTGCTACCTCCACTGACCAACCAAAGATTTTCGCAGCTTTTCTTCCTTCCTGGCGCCGCCGCTAGATTGGGCACAGCAACAACCGCAGCGCCGAGCTGCTCTTCTTCAAGAATCGATTAATCCCACCGAGCTCCTGCATACCAGTACCTCACCATGGCAGAGGCAGGATCAATCAGTTTCCATTGGGTGGTGCTCTCCAGCAGGCAGCGTGCGTGCCCAGCGGTGGTTGCCCTGCGAATTATGATGATGGCAGGCAGGGACTGTGGTTCCTTCCGGGTATATATAGATAAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.332741
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0014600.2 1 10518942 A G
Osa01LNT0014600.2 1 10520465 A G
Osa01LNT0014600.2 1 10520526 T C
Osa01LNT0014600.2 1 10521599 A G
Osa01LNT0014600.2 1 10521727 T G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0014600.2 osa-miR395w Cleavage 5.0 15.795 1 22
Osa01LNT0014600.2 osa-miR1423-5p Translation 4.0 24.149 1 24
Osa01LNT0014600.2 osa-miR1846d-3p Cleavage 5.0 20.351 1 20
Osa01LNT0014600.2 osa-miR1428b Cleavage 4.5 20.493 1 21
Osa01LNT0014600.2 osa-miR1428c Cleavage 4.5 20.493 1 21
Osa01LNT0014600.2 osa-miR1428d Cleavage 4.5 20.493 1 21
Osa01LNT0014600.2 osa-miR5338 Cleavage 5.0 17.308 1 21
Osa01LNT0014600.2 osa-miR5489 Translation 4.0 23.719 1 21
Osa01LNT0014600.2 osa-miR5499 Translation 4.5 15.517 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0014600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0014600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0014600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0014600.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0014600.2 1 QBphr1 Resistance or Tolerance Insect resistance R210 RZ382
Osa01LNT0014600.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0014600.2 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0014600.2 1 nan Resistance or Tolerance Insect resistance RM576 RM3412
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