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

>Osa02LNT0173800.1

CAGGTTTTCTGTCCGCATGAAATTTGTCAGAGTCAGTGGCTTTCTCCAAATATGAATAGATCTGTTGGACAGGACAACCATCTCCTTGAGTTTGACCCATAGCTGGCTTTGCTCCAGACATCCCTCAACAAATTGATTGCCTTCTGGCAATAGGTAGCTGCAACTCAATCTTCTGGAGTATGGAATCCTGGGGTGATGCGGCAGCGGAGCATTCTTGGCCGCCGCCGGCGGCCGGGGAGGGGAGGGAGCAGCTTGGCTTGCGCGGCGGAGGCGGCGGCGGCGGTGGGTTTTGGGAGGGGGTAAGCAACGGAGCGGAGGAGACAGTGAAGCAGAGTGGAGTAGAGTGGAGAGTGTGGGACTAGTGGGATAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.879073
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0173800.1 2 24474916 C T
Osa02LNT0173800.1 2 24474861 T G
Osa02LNT0173800.1 2 24474888 A G
Osa02LNT0173800.1 2 24475048 T C
Osa02LNT0173800.1 2 24475249 T G
Osa02LNT0173800.1 2 24475255 T G
Osa02LNT0173800.1 2 24475326 G A
Osa02LNT0173800.1 2 24475473 C T
Osa02LNT0173800.1 2 24475482 A G
Osa02LNT0173800.1 2 24475766 G A
Osa02LNT0173800.1 2 24475779 G A
Osa02LNT0173800.1 2 24476128 C T
Osa02LNT0173800.1 2 24476233 A G
Osa02LNT0173800.1 2 24476326 C G
Osa02LNT0173800.1 2 24476488 A C
Osa02LNT0173800.1 2 24476515 A G
Osa02LNT0173800.1 2 24476564 A T
Osa02LNT0173800.1 2 24476592 A C
Osa02LNT0173800.1 2 24476766 A G
Osa02LNT0173800.1 2 24476834 G A
Osa02LNT0173800.1 2 24476853 A G
Osa02LNT0173800.1 2 24476860 G C
Osa02LNT0173800.1 2 24476884 T C
Osa02LNT0173800.1 2 24476923 G T
Osa02LNT0173800.1 2 24477013 C A
Osa02LNT0173800.1 2 24477026 T G
Osa02LNT0173800.1 2 24477040 C T
Osa02LNT0173800.1 2 24477052 A C
Osa02LNT0173800.1 2 24477157 A G
Osa02LNT0173800.1 2 24477185 T C
Osa02LNT0173800.1 2 24477190 A G
Osa02LNT0173800.1 2 24477205 G C
Osa02LNT0173800.1 2 24477208 G C
Osa02LNT0173800.1 2 24477258 T C
Osa02LNT0173800.1 2 24477259 T G
Osa02LNT0173800.1 2 24477327 T G
Osa02LNT0173800.1 2 24477346 C T
Osa02LNT0173800.1 2 24476291 G C
Osa02LNT0173800.1 2 24476197 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
Osa02LNT0173800.1 osa-miR5337b Cleavage 4.5 21.613 1 21
Osa02LNT0173800.1 osa-miR417 Translation 4.5 19.717 1 21
Osa02LNT0173800.1 osa-miR166l-5p Cleavage 4.0 14.783 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0173800.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0173800.1 2 nan Others Others C424 G45
Osa02LNT0173800.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0173800.1 2 qPTD-2 Morphological trait Panicle/flower C424 G45
Osa02LNT0173800.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0173800.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0173800.1 2 qPN2 Morphological trait Culm/leaf RZ961 RZ401
Osa02LNT0173800.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0173800.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0173800.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0173800.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0173800.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0173800.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0173800.1 2 qRPA-2-c Resistance or Tolerance Other soil stress tolerance C424 G45
Osa02LNT0173800.1 2 Tiller number Morphological trait Culm/leaf R26 C424
Osa02LNT0173800.1 2 Sn2a Morphological trait Dwarf C424 G45
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