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

>Osa01LNT0029000.1

ATTAGTTTATCTTGCCTCTGCTTTATATTCCAATTCTCATCGGGTTTCATTAAGTACAAAAGGTTTCAGAAAGCTTTCACCCACATTTCTGCATGTTTCGTCATAGTTCTATGCTTCTTCCAGTCCTTCAAGAAACCTTTTTTCCCCGGAAATACCTTGATGTCGAGTGGACCTCAGTTTCAGAAGTAGCCAACGCCCTTGGCTTCACCTAACTTGGGCGCATTACAATCATTCCCAAGAAACAAGAGACGGCCATTTGAGCGCACAGCTATTTCTCTTATGCGCCGAACCAGTCCAGTTATAGGATCAGAAAACACTTTCGTCTCAAGATTCCCTTCCAGATAAAGAACAGAACCGGTCTTGACGTGCTTGAGCGCGAGGCTGCCGAGCCGTTCCGGGTAGATGCAGACGCGGTGCCACTGCACGGAGCATCGTTCAGCGTACTGGTGCGGCTCCTCGCGGTCCAGCGGGCGGCGGTTGTTGCGGATGCCGCCGGTGCCGAGCGAGAACAGCACGACCGTTCTCCCGCTCCTCAGCCGCTTCTGTATCGGCTCCTGCCCCACCTTCCCCACCATTATCGCCTTGTAGATTCCGGGGTCAAGGCCGTTCTCGAGGGGACGGGTGTCGCCGGCGCGCGGCCGGGCGGCGGCCTGCTGATCCTGGCCCGCTGGTGGCGGTTGCTGCTGCTCGGGGTCGGGTCCCGCATCAGATCCCGCACGGGAGTCGTCGGAGGAAGAGGAGGAGGAGGAGGATGAGGAGGAGTCAGTGGTGGAGAAGGGGCGGAGGGGGGAGGAAAGGACGCGGCGGGTGAGGAGGAGGCGGCGGGCGAGGAAGGAGGAGGCCGTGGCCGCCATGGTTGCACGCCGCTTGAGAGCAAGAGACGGAAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.891554
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0029000.1 1 25837668 T C
Osa01LNT0029000.1 1 25837954 G A
Osa01LNT0029000.1 1 25839881 T G
Osa01LNT0029000.1 1 25839979 G A
Osa01LNT0029000.1 1 25841553 C T
Osa01LNT0029000.1 1 25842359 C T
Osa01LNT0029000.1 1 25840323 A 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
Osa01LNT0029000.1 osa-miR5789 Translation 5.0 17.373 1 21
Osa01LNT0029000.1 osa-miR5822 Cleavage 4.5 16.047 1 21
Osa01LNT0029000.1 osa-miR414 Cleavage 4.5 8.708 1 21
Osa01LNT0029000.1 osa-miR2930 Cleavage 5.0 24.586 1 22
Osa01LNT0029000.1 osa-miR2930 Translation 5.0 17.418 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0029000.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0029000.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0029000.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0029000.1 1 yld1.1 Physiological trait Source activity RM5 RG462
Osa01LNT0029000.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0029000.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0029000.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0029000.1 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