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

>Osa02LNT0173000.1

CTCACCACTCGCTACCCCCCTTTTCTTCTTCTTCCTCTAGCCACCACCATGCGTGACGACTCAAGCGGCAGCATCGTCCACCATTGCTGCTGCTTCCTCCATGGCCGCGCAAGCTTCCGGCCATCAGCTGGTTCTTCCTCGCTTGCCTCCTTGGGGCGCCATTGGATCAGGAAGAGGAGGCTGAAGACTTGCAGCAAGCGGTGCGCCCTTATGTGATGGCCCTATCCCCACCGAGCTTTTCTTCCACCGCCCCTCCTCTCGTTCTATTCTCGGATGCTTCTTGCATTAGAGGCATTCTTTTCGTTTCGATGAATGATAGTTAAGCGGTGTCTTCTTGACCTTGCAAGACTTTTCATCGAAAAACACTCTTCTTCACTTTTCTCGTAATATCCTTGCCAACATTTCTCGTCCTCTCGCGTCTATCACTCCTCCCATCTTCTTTGTCCCCGTCTATCCCTCTTGAGCTTGTGACTTGTGTGCTAAGGTACTTTAGATGTACTACTTTTGTTATTATAGATGGCTATGTAGTGAGTTGGTCTATGTTTCTGATATATCTTTTGAGTTATGAATCAATTAGTTGTATGGTCGTCACTCGTCAGTAGTTCCTTGCGTGGTGATTGATCTCTCTCTATATATATATGCTCCTTGTTTTATTGATCCTAACTAACAGGGAAAGAAGATATGCCATGCTAGTAAGCAAAGGGCAACGCTTGTGGTGTTTAATACCTTGTGCTTGTGATATGTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTAACCCTTGTTCCTGTGTATTCACAGTGTGTACATCAGTACATGTTGGTGTTTCTGATTCTCTCTTTATTTTTTGTTGATGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.943048
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0173000.1 2 24022198 T C
Osa02LNT0173000.1 2 24021766 T C
Osa02LNT0173000.1 2 24022120 C T
Osa02LNT0173000.1 2 24022133 T C
Osa02LNT0173000.1 2 24022192 C T
Osa02LNT0173000.1 2 24022381 C A
Osa02LNT0173000.1 2 24021982 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
Osa02LNT0173000.1 osa-miR5819 Cleavage 3.0 23.502 1 21
Osa02LNT0173000.1 osa-miR390-5p Cleavage 2.5 8.317 1 21
Osa02LNT0173000.1 osa-miR2098-5p Cleavage 5.0 24.225 1 20
Osa02LNT0173000.1 osa-miR3982-5p Translation 4.5 23.954 1 21
Osa02LNT0173000.1 osa-miR390-5p Translation 4.5 16.748 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0173000.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0173000.1 2 Sn2a Morphological trait Dwarf C424 G45
Osa02LNT0173000.1 2 Tiller number Morphological trait Culm/leaf R26 C424
Osa02LNT0173000.1 2 qRPA-2-c Resistance or Tolerance Other soil stress tolerance C424 G45
Osa02LNT0173000.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0173000.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0173000.1 2 nan Others Others C424 G45
Osa02LNT0173000.1 2 qPTD-2 Morphological trait Panicle/flower C424 G45
Osa02LNT0173000.1 2 qPN2 Morphological trait Culm/leaf RZ961 RZ401
Osa02LNT0173000.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0173000.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0173000.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0173000.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0173000.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0173000.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0173000.1 2 nan Physiological trait Eating quality C621 C370
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