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

>Osa02LNT0169800.1

GACAGATTTAATCTTGATATAAAGGTACAGAATATCATCTGAAAGATACATTCAGTTCCCAAGTTGTTCAGATATATAACATATATAGCTATACGCATACCACTTGCTAATGTAAAAGAAGAAAATCAAGTCAATGGAAAATACAACTAATATCAAACTGACTGCCGGAATAAACTCCAGCCATATGTTTTGTGAACATGTGATCCATTTAATATAGAGATCATTAGATGAATGATACATAGCTTCATGAAGAGACACTCTTCAAGGTCATATATGGCCCATTCAAGGCGCATCCAACTTTCGTGGGATCAAAATGAGGTTAGCATAATGTATTTATGTTGTGCTGATGCTAAATAATTCCCTTCTCTTCTGAGCAAGCTTATCAGTCTTTCTTCTTTCTATCAACATATGGATACTTCTGGTAAATAAATATGCTTGTCATGACAAGTGGTAATGCTATCAGGCAATAGAGTGATGGAGGCTTTCCGTCAAATATAAATTGTAGTAGTGCAGTTACAAGGAGAGCTGACACTATCACAAAACCCTTTCTAACACCTCCTGCATATGTTGTGACCAGACCAACAAGAATTCCACCAACAGCATTCATTAATACTGGCACCACTGTCAACAAAGTCCATTCATGGAAAAAACCATGCTTTCTGATGGCTTCCCCATCTGGTGATTGAGAAGTACTTGCTAGCAAGCACATGCTCCCAATAAACGACATCTCTATAGTCATCATGTAGGAGGTATGCTTTTTAACCTGAGATGCCCACTGGCACAAAGACGAGGCCAAACCAGACAATACAGATGCAACTGTAACAGGAATGATTCCATAGAGCAAGATATAGTCTGAATTGCCACCACCAGAACCTTTGCTGCTGCTCTCCCCAATGCTCAAAAGGACCGCAGCAGCGATTAAGAGGGTTAATGCAAAAATTTGCTTGGGTGATTGCTTTTGCCCCAAAATAAGATAAGTGAAGAATGCTGTGAATAATAGCTTGGTCTGGTTAAGGATTGAGAAGGTCAATGAATCCAAATTCTTGTATGATATCTGCAGTAAGCTATTCTGCAATGCATATATAGCAGCGGGAAGTCCTGATGCAGTAAGTGATCTGGTGATACTCCAATTATTGAATTGCTTCTTCAGACTACCTTCTGCCACCAATAAAATGACTGCACATATAACCTTTGCTACTTCGATTGAAAGAACCAATGTAGTCACTATAACTTCTTGCCTGACGAAGCGCTTGGAGATGAGGGGCTGGGCGCCGTACTGCAGGGTAAGGAGCGCGAGGTAGAGCGCCACCTTGCGCCGGCCCGGCGCGCTCGCCGCCGTCGACGGAGTAGCCGACGAGCCCATTCGGCCTCTCGCCGCCGCGTCGCGCCGCCCTCCCGCTCCCGATCGAAGTCGAAGCCACCGGAATTCGGCCGCTCGGCTCGTGTTCCGTCAAGCTGGTCGCCTCGCCTCTCTTTGCTTCGCTTGTCGGTAACGGGGCCGCCTACCGTCCCACGCGCCACGCCGTGGTGGGAGTGGGAC

Coding Potentia
Explanation CPC Score
noncoding -1.34043
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0169800.1 2 21983243 C T
Osa02LNT0169800.1 2 21983336 A T
Osa02LNT0169800.1 2 21984408 T C
Osa02LNT0169800.1 2 21984771 T C
Osa02LNT0169800.1 2 21983719 A G
Osa02LNT0169800.1 2 21985065 T C
Osa02LNT0169800.1 2 21985486 T G
Osa02LNT0169800.1 2 21985637 T A
Osa02LNT0169800.1 2 21985991 T G
Osa02LNT0169800.1 2 21982270 T C
Osa02LNT0169800.1 2 21983655 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0169800.1 osa-miR5827 Cleavage 5.0 22.111 1 21
Osa02LNT0169800.1 osa-miR1860-3p Translation 5.0 14.057 1 22
Osa02LNT0169800.1 osa-miR2864.1 Translation 4.0 19.188 1 21
Osa02LNT0169800.1 osa-miR2864.1 Translation 5.0 14.934 1 21
Osa02LNT0169800.1 osa-miR2876-3p Cleavage 4.5 15.823 1 21
Osa02LNT0169800.1 osa-miR5506 Cleavage 5.0 16.646 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0169800.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0169800.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0169800.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0169800.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0169800.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0169800.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0169800.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
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