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

>Osa05LNT0318700.1

ACGTCATCTAGCCAGCTGTTTCTTTCTTCTTTCTTTGGGTGGGATAAAGCAACATATGATGCAACCGTTCTCGCATGAAAAAGCTCAATTCAGGAAAGGTGATCACAATTATGTTAATTTTACTGGTCATCTCAGCCACTTAGCTTTTTCCAAGTTCAATTATTGTACAAGGGATACTTCTTGCCAGGGCTGAAAACTGAAGCTGACGGGATAGAATGGAGGTAGGTAGATATTTATCCCTAGATGGAAGATACATCTAGCATATACATGTACAATTTCTTGAAGCCCAGCAAAAAAAACAGTGGGTCAAGTCCCGTGAGGAAGACCGACTAGTTGTATGAAACTCTTTGACACACATCATGGTCAGCTACTCAAGATGAACCCAGGCCCTGTTATGAAATGTTCTTGAGTTTCTTTCGCGGTTTCAAGTCGACAACAATGACAGTGATGTTATCCTCGCTGCCTTTCTTCAGAGCGAGTCTCATCAGATAATCGGCAGCTGCTTGGGCAGCAGGGTCGGTGGATCCTTCACCCTCATCAGACAATGGTGATGCAGCGCCATTGTTCTTGTGCCACAGAAGGATCTGTCGGCGTGCGACTTTGCATGCCTCTTCATTTGACACAACATCCCACAGCCCATCGCTTGCTAGAATAAGACAGTCATCATCCTTCGCCCGTGGAACGACCATAACTTCCGGTTTTGGAATGACAAATGGTTTCAGATAGCGATCACCGATTGATCGGGACATAGCAAGTATACCGGACACCCGGTAACCATTCCATTGGATGACCTTGCCTCCCTGGGCTTCAATCCTTGCCCGCTCATCCTTCCTGTCAGGCTTGTGATCAATTGACAAGGCTACGGGCTCCTTCCCGCGGCAGAGCACGATGCGCGAATCTCCACAGTTGGCAACCACCACATGAGATGAGCAGACAAGCGCAACGACCGCCGTCGAGCCGACGTTCTCTGCGGTCACCGGTTCTGACCGGACCTCACCGCCACCATTGACAACCCTGGTCACTCTCCCTGAAACCTCATCGTCCACTCTCTGGAAACATTTCGTGAACACATCATCCCAGTGCTCTTTCATGTCCACCTCGCCCATCTCCCCCAAATTCTTGCCAAGTCGCTTCAGCTCCTCGCTCAAGACGACGTGGATCCTTTCACGGCAGTAGTTCGCCACCTCGGCGCCGCCGTGGCCGTCGAACACGCCGAAGAGGTGCGCCGGCAGGCGGAGCGCGTCGGCGTCGAGGCCCAGCGCGTCGAGGTCGCGCCGGCTGGCGAGCAGCCGCACCGGCACGTCCGCGAACCGCGGCACGGCGGCGCTCGCGTCCTCCATCTCCGCGCTGCGGCCGCGCGTCGACGCGCAGCCCCACACCGGCGCGCAGTCCATCAGGTAGACGCTCCTCTTCCCCGCCCCCGCCGCCGCCACCGCCTCCTTCCTCTCCCCAAGATCCACCCTCTCGATCCCGCCCGCCCATTCCCCCGTGCACCCCACCCGCGCCGCCGTCTCATCCTCCCCACATATCGCCGCCGCCGCCGCCGCCGCCGCCATCACCAAGATCACCTCTCCCTCCTCCCCCCACAAAGAAAATCACCCCCAACAACACCAGCAACTTCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCAACAACAACAACAAAACTACTTCCCAAGAAGCCAACGAAGCCGACCACCTGACCTCGCAAGCACAAGGTGGGGTGGGTGAAGAGAACCAAAGAGAGGAGCAGAGAGGAAGAAGAGGAGGTGTGTGCTTGCCCAAAGACGCGCGCGTGTCGAGGGGGAGGGGAAAGGGGAGGAGGAGGAGGAGAGGAAGGAGGGAGAAGGCGAGGGGAGGTGGTGAGACGGGATTGGACGGGTGGGGGTGAGCGGGACGCGCCGTATCGGACAGGTCTCCCCGTCTGCTGCTGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.488541
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0318700.1 5 26705889 T C
Osa05LNT0318700.1 5 26706129 A C
Osa05LNT0318700.1 5 26708155 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
Osa05LNT0318700.1 osa-miR5826 Translation 5.0 14.512 1 24
Osa05LNT0318700.1 osa-miR1847.1 Translation 4.5 20.297 1 21
Osa05LNT0318700.1 osa-miR1861d Translation 4.5 19.59 1 22
Osa05LNT0318700.1 osa-miR1866-5p Translation 4.5 10.255 1 24
Osa05LNT0318700.1 osa-miR2095-3p Translation 4.0 18.087 1 20
Osa05LNT0318700.1 osa-miR2103 Translation 4.0 20.374 1 22
Osa05LNT0318700.1 osa-miR5149 Translation 3.0 15.41 1 22
Osa05LNT0318700.1 osa-miR5337a Cleavage 4.0 15.374 1 21
Osa05LNT0318700.1 osa-miR5521 Translation 4.5 20.985 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0318700.1 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0318700.1 5 qGT5-1 Physiological trait Eating quality RM538 RM480
Osa05LNT0318700.1 5 qRGR-5 Physiological trait Germination/dormancy RM421 RM480
Osa05LNT0318700.1 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0318700.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0318700.1 5 QFla5 Morphological trait Culm/leaf RG470 RG346
Osa05LNT0318700.1 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0318700.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0318700.1 5 nan Physiological trait Eating quality RM163 RM31
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