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

>Osa02LNT0168500.1

GGGAGAACTGTAACACTATAATAAACACATACAGAGCAACTGACAAAAGTCCAGGACTACACTGACACTTCAGAACTTGACCTAATAACAAGGCAAATGGGTAAAAAAAAAAAGAAAGGGGGGGGGGGGGGACAAAATAAACAAGATGTGGTATGGCAGCTTAGAAATCAAAAGGAACATCTACTATCTCAGGCATCGACATACATTGGTGCCCCGACGAGAAAAATATCGGGGCAAATACCAACTCAGATGCTCTTGCTCTTACTAGTGTTCCTCATGCAGATCTGCTGCTAACTACGTAACACATTATCTTCCTTTTATGAAGGTTTGTGTAGGCTGGTTCATCTTTTATTGAACCATTGACCACGGGAACACAGCACCAGAAGAAGTCCTCAGCATAGGTATATGTCTTGCCACAAAGAAGGCTTCGTTGAGACGAGCTGTACGGTCTGCAAACTGAGAGGCTCTCTTATCATCAAATGCAATCTTAATATGGGGAAGTCCCCGGGCCTTGCGCCTCATCCTGTACATCCTCCTCCCCAGCACGAATAGCCCCAGCAATGCGGCGGCAATGGAGAAGGACCAAATCGGCTTCACCTTCCAAGCACAGCATTGCAGCAGCCTGAACGGCAGCCTCCACCACACAACCACCTGCTTCTCTCCTCCATCGGCAACCGGGGCTCGCGCCAGAGGCAAGGAAGAGCCATCCTTTGCCTCACCATCCTGTTCACCGCAACCGGAAGCGGCATTACCGCTGTCGACAGCCCCCATCGCATCGCCTACCGCAGCAGCTTCAGCGAGTGAGATTTCTCCAGCAACCGGGGATTGTGCCAGAGGCAAAGAACCATCCTTCGCTTCGCCTTCCGGTTCACCGCAGCCGGATGTGACATCACCACTCTTCCATTGCACCAGCGCCTCTTGGACAAACCCCAATGCATCACCTATTTCAGAAGCTTCAGGAAGTGAGCTTCCTCCATCTTCCACTTCCAGTTGCACATCGGAATTCTCCGGTGATTCGAGTCGGGATAATTCTGCAACCACAATTACGTCAGGATCCAAATCCTCTCCCGTCCCATCCGCTTCCTTCCCCTGCTCAATCTCCCGCTGAGCCGCCTCCTCTCGCCTCACCTCTCCGCATGGCGAGGCAGCGGCAAGAACCGAGGGTTCTCCGCTCGCCTCCTCAACCCCGCCACCGAATCGCAACCGCTCCTCGCTCCAATCCTCCTCAACAAGAGGATCCAATCTCCCTTCCGGAACCGAATCAAACCCTTCCCCCTTCCCTTTGTCGCCGGGGTCGGAGAGGAGCCCCGACCACGAGCCCTCCTCGCCGGGGAACCCGTCGACGTCGGAGGGGGCGACGAGGGCGAAGTGGTCGTGCAGGACGTCCCCGCCTCCGCCGCCCTCGCCGGGCACGAGCACCACGAAGTCCTCCCCGTCGTCTTCGCCGCCGCCGCCGTGGGCGGAGGCGGCGGAGAGCACCTCCCAGTCGCTGATCTCCGAGGCGGCGTCGTCGTCCATGGCCGTCGCGGCGGTGGTGGCGCCCTTCGCCTCCGGTGGAGTCTAGAAAAAGGGAAAGAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.568128
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0168500.1 2 21171418 G C
Osa02LNT0168500.1 2 21172066 C T
Osa02LNT0168500.1 2 21172506 T G
Osa02LNT0168500.1 2 21172521 A 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
Osa02LNT0168500.1 osa-miR5792 Cleavage 5.0 20.609 1 24
Osa02LNT0168500.1 osa-miR5794 Cleavage 4.5 22.152 1 21
Osa02LNT0168500.1 osa-miR396f-5p Cleavage 5.0 22.859 1 22
Osa02LNT0168500.1 osa-miR3979-3p Cleavage 5.0 12.627 1 20
Osa02LNT0168500.1 osa-miR5075 Translation 4.0 23.452 1 21
Osa02LNT0168500.1 osa-miR5149 Translation 3.5 12.259 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0168500.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0168500.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0168500.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0168500.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0168500.1 2 qRTH-2 Morphological trait Root RM262 RM341
Osa02LNT0168500.1 2 qSTA-2 Morphological trait Root RM262 RM341
Osa02LNT0168500.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0168500.1 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