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

>Osa02LNT0163700.1

GTCTATACCAGTAAGCTTCACACAGAACCACAAACATGCATCATTACTGAAGTTAAGGAACAGCTTGCTCCCTTTTTTCCAAGAATCAACAGCCTGCTCTAAGAAATATGATGAATCTAACCATATCCCACCAGAGCAGTCCATACCCTCCAAATCTCAAAATTTGAAGGGAACACTCCAAAGTTATTAGACTCCCCAAATCTCAAAATTTGAACATAGTACTACAGAGATGAATGGCCCATCAAACTATGCACATCATTTATGTGCGCAACCTAGAGCAGCAAAGCAACAGAGTTCCTGCATGGATAAGGACATACAATTGAGCAGGTACAAAGAGGACGGTATGTCATCTACTCCATCAAAGTCCTTACCTTTTTCTGTTCATAATCCCAGGACCTGCAAAGAGTCAGAGAAGCTGACACAATTCAAGACATGAGAATAGTCCCTCACACTGCCTAGCCATCCATCCAGCCCACTGGTCCCCCAGCTCAGCTCCAAGTAAATTTCACTGAGCTGATCAGAATCCTGATCAACACAAAACAGATAGGATGTGCAGGCAGGAAAAGATTTTCTAGAAAATCTTTACCAACAGTTGCCGACAAAAATGCAAGCTTCCTGAATTTCATCCTGAGTGTGCCAGGTCCACTTGTCAGAGAGCAGCAAGTAAAGATTTGCATGATGTTTTTTTTTCTCTTCTTTCAATTGTACTGCTACTACCAACAGAAGGACTTGAATGCTATTCACCAATTGAAGCCTCATCAAGCTGTTCAAGAGCTCAGCAATGACAAAGTGGAGGCAAGTGAGACCACACTTTTGACTTGGTCCTGTGCTCCTGGCAGAAAGCAGTGTGGCAGCAAATGCAAGTAAATGCACACCAGTGCTGCAGCATATGCATGCAACTGGGTACTGGAGCTAGATAAGCAGAAGCTGGATACCATTTCATTAGCTATGTAGCTGGACCAACACTTGACTCTCTAGGCATCTAATTAAAGAGGACAGCTAATCAAACACAACTAGATAAACTTGATTCTTTACCACCAAAAGAGATCAATGCCTACTCCCTGTATCGGCACATAATTAGCGAGGATCACTAAACGCAAGAACCAGCCAAGCTACCATCCAAGCTGCTCTATAAGTCTTAGACTCCATTGTTGTCGTTGTTGCTGCTGGTGTTGTTGTCATGCTCCTCGTTAGAGGTGAGATGGTTGGTGCCGTTGCTGTTACCACTAACATCGCATCTGGAGCTGTAGTAGGTATGCTTCTTGGATGAGCCCTTGCACTGGCTTGCTGGGTACTTGCGTGCATTGATCTCCAGCTTGCGTAGAGCAGCGCTGCCAAGATCGACTCCGCACATGTCCGACAGCCTGACGAGGTAGAGGAGCACATCGGCCAGCTCCTCCCCCAAGTGCACCTTCTCCGCCTCGTCCCAGCCGGGGAGCCCCTTGGGCACCTCCCCTTTCCACTGGAATATCTCAGAGAGCTCTCCTACCTCCCCTACCAGGGCGAGGAGGAGGTTCCTTGGGGAGTGGAACTGCTCCCAATCCCTCTCCCTGGCGAAGTCCGCCATCCTCCTCCGCAGCTCCTCCAGCCCCACCGTCGCCGCCGCCTCGGCGTCGCGGCCGCCGCGGCCCTCTCCCACCACCTCGACGCCGTTCATGATCTGTGCGAGAGAGAGAGAGAGAGAGAGAGGAATA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.50427
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0163700.1 2 16464980 G C
Osa02LNT0163700.1 2 16466370 A G
Osa02LNT0163700.1 2 16466475 T C
Osa02LNT0163700.1 2 16467141 G A
Osa02LNT0163700.1 2 16467833 G 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
Osa02LNT0163700.1 osa-miR6256 Cleavage 4.5 22.095 1 22
Osa02LNT0163700.1 osa-miR156a Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156a Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156b-5p Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156b-5p Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156c-5p Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156c-5p Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156d Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156d Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156e Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156e Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156f-5p Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156f-5p Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156g-5p Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156g-5p Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156h-5p Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156h-5p Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156i Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156i Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156j-5p Cleavage 5.0 12.993 1 20
Osa02LNT0163700.1 osa-miR156j-5p Cleavage 5.0 11.248 1 20
Osa02LNT0163700.1 osa-miR156k Cleavage 4.0 11.248 1 21
Osa02LNT0163700.1 osa-miR171d-5p Translation 5.0 22.541 1 21
Osa02LNT0163700.1 osa-miR530-5p Translation 5.0 19.862 1 20
Osa02LNT0163700.1 osa-miR444d.3 Cleavage 4.0 22.418 1 21
Osa02LNT0163700.1 osa-miR1875 Translation 5.0 11.954 1 24
Osa02LNT0163700.1 osa-miR5338 Cleavage 5.0 14.851 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0163700.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0163700.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0163700.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0163700.1 2 d50 Morphological trait Dwarf nan nan
Osa02LNT0163700.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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