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

>Osa02LNT0172800.1

AACACATTATTCCAGTTAAAAATGATATAATTCATAAGAAAGTAAAAGCGGGCTGATTATAGTTACAAATATTTTTTGGAAATACAAAAACGTGAAAAATGACCACTATCTCCTCGACAACTCGATACAATTTTCACCGTGTTTACTCACATATGCAAAAAGGGCGGAAATCTTGACGGCAACCAGGCTATCTCTCTGAAGCTTGTTTCCATGGTAACTTAAAAGTGTCTCTCCACCGAGTCTGCTTAGTAAAACTCGTGGATATCTTGTTCAGGCGTACGATTATCTCTTCGAACGTCGGCCTGACCGAAGGTGTTGGATCCCAGCACTCCTGTATAAGCTCTCTCAAATCATCAGGATAGTATTTGGGTTTGTTCTTGAACGGTGGTCTCATACCCTCCAAACAAATCATTTTCGCCGCCTCCTCCGGTGGTTTTGGGTGGAAAGCATGAGTTCCTTCAATCATCTCATAAAGAATGAGACCAAATGCAAATACATCTACACTTCTGTCAAACGTTCCATTTCTGTACATCTCAGGAGCGGTGTATACACTGTTAAATTTTGATGTCGTCTGATCCATTTGTGGATTATCTTCTGAGACTTTAATCAGACTACGTGAGCCAAAGCCTGCCACTTTAAGTTTCCCTTCATCATCCCGCACAATGCTTCTGCAACTTTGTTGACAGATTGCCATGGATGATTGGCTCTGGCTTGCACTCGTGGAGATAATTTAATCCCCTCGCAATGTCAAGGGAAAATCTGATAGCTTTGTAAGGCTGCAAGCGACCTTTTGTTTCAAGATAACTGGCTAAATCACCCTTTTGATGATACTCTGAAACAATCATCATTGGTACATTTTGTGTAACAGCTCCCACAAATTGGACCAAATTTGGATGGCGGGCCTTCTCCAGTAAAGTAAGCTCGTGTTTAAATTCATTTATGCTATTGGCGTCTGAGAAGCTGTCTTTGTCAAGTATCTTAACAAACACTTTGGATCCATACCACCTGGCAACATAGTGACCCTTTGTAACTTCCTCTCCTCTTCTGAACTCGAGTTCAAGTGGGTTCAGCTCATACTCCGGAACTTCTTTGGGATTTGAAACTGTCATCGGGGTCTTCTTTTGTTTCGGAGTTTTTGCTCCTCTTGCTCTCAGAAGGTTGTAAACTTCAAAGTGCCCGTAATGCTTCGCGTCTGCCGCTGGCGTGCTGCCCCAGCGGTCGCGGGCGTTCATGTTGGCCTTCCAGCTGAGCAGCAGGCGCACCACCTCCCCCTGCCCCTCGCAGGCGGCGATGTGCATCGCCGTGCGCCCGTCGAGGTCAATGCTGTCGACGTCCACCCCGTCCCTGAGCAGCTCCTCCACCCCGGCCACGTCCCCCTGGCACGCCGCGAACAGCAGCCGCATCGTCGCGTCCAGGTTCTCCGGCACGGCCAGCATCGCCGCCGCCCCCGACCCATCCTCCGCC

Coding Potentia
Explanation CPC Score
noncoding -1.16588
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0172800.1 2 23876562 C T
Osa02LNT0172800.1 2 23877011 G A
Osa02LNT0172800.1 2 23877024 A G
Osa02LNT0172800.1 2 23877305 T G
Osa02LNT0172800.1 2 23877668 A T
Osa02LNT0172800.1 2 23877781 G A
Osa02LNT0172800.1 2 23878161 A C
Osa02LNT0172800.1 2 23878184 T C
Osa02LNT0172800.1 2 23878351 T G
Osa02LNT0172800.1 2 23879966 T C
Osa02LNT0172800.1 2 23880126 C G
Osa02LNT0172800.1 2 23881004 C T
Osa02LNT0172800.1 2 23878372 T 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
Osa02LNT0172800.1 osa-miR5529 Translation 5.0 22.295 1 21
Osa02LNT0172800.1 osa-miR5532 Translation 4.0 11.119 1 22
Osa02LNT0172800.1 osa-miR5832 Cleavage 4.0 21.802 1 21
Osa02LNT0172800.1 osa-miR395b Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395d Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395e Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395g Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395h Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395i Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395j Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395k Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395l Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395s Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395c Translation 4.0 19.5 1 21
Osa02LNT0172800.1 osa-miR395a Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR390-5p Cleavage 5.0 14.995 1 21
Osa02LNT0172800.1 osa-miR395m Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395n Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395o Translation 3.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395p Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395q Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR395r Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR1857-5p Cleavage 5.0 14.643 1 21
Osa02LNT0172800.1 osa-miR395y Translation 4.5 19.5 1 21
Osa02LNT0172800.1 osa-miR3979-3p Cleavage 4.0 15.888 1 20
Osa02LNT0172800.1 osa-miR5082 Cleavage 4.0 22.581 1 24
Osa02LNT0172800.1 osa-miR5340 Cleavage 4.5 12.07 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0172800.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0172800.1 2 nan Others Others C424 G45
Osa02LNT0172800.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0172800.1 2 qPTD-2 Morphological trait Panicle/flower C424 G45
Osa02LNT0172800.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0172800.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0172800.1 2 qPN2 Morphological trait Culm/leaf RZ961 RZ401
Osa02LNT0172800.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0172800.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0172800.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0172800.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0172800.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0172800.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0172800.1 2 qRPA-2-c Resistance or Tolerance Other soil stress tolerance C424 G45
Osa02LNT0172800.1 2 Tiller number Morphological trait Culm/leaf R26 C424
Osa02LNT0172800.1 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