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

>Osa02LNT0184800.1

CGCTCCAACCACTTTATGGAATAGATAAAAATAGAATTTCAAAAAGATTAGATCTATACACTTAAATCATCTGTTACTACCAACGAGAATATACACCCTAAGCTCTTCCCGTGCAAAAAATCACACAAGGGCATGGTGACAATACCATAAGCTTAACAAATGAACAAAAGAATTATCACATGAACATGAAACAATTCTCTTAGGGCGTGAATTCACTCTACTCGAAAGTCGCAGCATCATTTACTGTCCAAGCTTGCTCCATATGCCTTTCCGTGCTGTTAGGCACTTCAATTTGCCAAACACAAAACCAGACTTTTGAGGGTTCCCGTCTACAAGAGAGTTCTCGTATATTTCCTTGCACTCTTGTACAACCTCTTTGGCTTCCTTCCTTGGAATGCCTTCCCTCATTCCCACAAGCTTCTCAACAACCTCAGGCGGGCAATCTGGTTGATGTTCCAGAATATTTGTATAAATGAGAGTAAAACTATCCAGACTCTCAGCTGAAGCAAGCTCCCTTAGATCAGCCAGAATCCGCACTCTGGTTTCAACTTTTGTCACATTAATGTGTTCTCTGAAAAAATCCATAAGCACTTCTTCATCAAGCCTCATCCTTTCGATTGTTTCTTCTTTTATATGGCCTTTCTGAGTAAGGAGATGATCAACGTATACCACAATTGTTTGCTCCAGGCAAGCCTCCACAAATCTTCGAAATGATCTTTCTTCAATATATTGTTTGACATCCCCAAAATAATCAGCAAATGTTGCGACAAGATATTCTGTAACCATTCCTTCCATCCAATCTTTTTGGTAAACTTTCACTAGTAGATCCTGTACACCTGGGTCTTCAAAAATAACGCTGACAGTTTGAAGGACTGCCTCCTTGGCAACCTCAAGAAATCCTTTGCAGGTATCTTCAAAATTAACCTGCTCAGCATAGTTTTGTGGAAGCGCTTCCAATGTACTGCTACTTAGCTCTGATGAAAGTTCGTAGCAACGCAGGTTGTTGTTAATCAATGCACATAGAGATTCCAAGCCAACATCAGAAGCTGGTTCCTCAAGTCTTTGCCTCTCAGCTGCTTGAAAATCAAGCATGACCTGTATAACTGCAAGAGCAATACGATACAGCATGACATCTGTGCTATTTTCTGTAACAATCTGCACTTGCTCAGTCAATATTCTGAACAAATCCACAGCTGCAGGTGTATATAGTTTCCCATCCTCTGTACTTTTTGGTGGTTGTGTTTTGTCAGCCTCCAAAATGTTACTGTACCATTTCTTAGTTGTTGCTTGCATACGTTCGACATACATATTCATGAGGGGATCCAATGCACCACTTTCTGAACAAACTTGGGCAAGAGACTCGTCCACACCAAGACCGATAAGATTTTCTTGGTATTTCACAACCCAACCTGTTACCTTAAGAATATTTATATTTGGAATATCATTTGCTCTATCACTGAGAAGTCTTAGCATCTGGATGAACCTTTCAGTATACAGGTTTACCATGAGCTGGAAAATTTCATATCTAGGAGGAAAACATGGTGCAACATAGTCATAGATATCACCAAGCTCATCTCCAATTGCCTTAGCTTCCTCCAAAGCTTCCATCAAATCTTCTGAGAAAACAAGCTCGGTGAGCAGTTTGTCGAAGCGAGCCTCAACAGCCTTCCTGATATACTCATAGCATTTGTCCTTGTAGCCCTTTCCCTGGACCTTTGATTTATCTTGAGTGCTTCTTGGGGTAGATGTTGCTCCTCCACCTTTCTTTGCAGTTCTACGCTGGTTTGCTATTGTCGCCATAGCACCTGCACCCTCAGCCTCAGCTGCTTCTTCTGCAACTTGTTGATCTAGGATCTCTTGCATTTCAACAACCCTTATTGCTCGAACTAACGTCTGAGGGCTATCTTTTGAAAGTCTGAAAAAGTTAGTGACATGGCCCCACAATGCTTTCTCAAATGTTTCCCATGAACGATCAACATCTTCAAAGTACTCTCTCAATCGACCAACTTCTTCCTTGTGAGATGCAGCAGCAGCTAAAGCAAAACGTCTCTTTCCATCAAGAGCTGTTAATCTCATAAGTGCGAATTAACTCTTTATCATCACTTAGCGAGTCGCGTGCTGCAGCTGCTTCAACAGAAATAGACATCATACCTCCCACATCCTTTAAAGTTGTGTTCAGGTTATTTCTTGCGTTGCTAAGAAGCTTAATCTTGTCGTGGTTCTCAATTAATGTTTGACACTCCTGGCACAACTTGTCTATATCTATGAAGTTCTCGCGTAGTTTGTTTATTGTTTCCTGAGATAGTGCAAGAGCATTGATGCCAGCATGGGCTTGCTCAACCTGCTCTGCTACCATTGTACTGAGCTGTGCATCATTTGTCTGCTGCCGCGCGAGGTAGTCGGATTTGATGGAGGCAATGGAGGAGAGGAGCTCCGGGAGCGGGAGCAGCTTCGCCACCTCGCGCACGGCCGCCTCCTTCGCCTCGATGCCCAGATCCTCCATGACAGCACGGCCGCGGCCGACGCCAACCGCTGCCCCGCGCCCCCGGCCTGCCGCTGCAGAGGCGCACGAAACCGAGGCGGCGGGTGAGTGCTCGGCGGGGTGGGAGGAGGAGGAGGAGGAGGGCGCGGCGCGGCGAGGCGGGGATGGGAGACGGAGATCGTGAAGATGGCGTGGTGTTTT

Coding Potentia
Explanation CPC Score
noncoding -1.16748
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0184800.1 2 31502361 A G
Osa02LNT0184800.1 2 31502809 A G
Osa02LNT0184800.1 2 31503069 G A
Osa02LNT0184800.1 2 31503332 T C
Osa02LNT0184800.1 2 31503594 G C
Osa02LNT0184800.1 2 31504411 G A
Osa02LNT0184800.1 2 31504572 G A
Osa02LNT0184800.1 2 31506049 T C
Osa02LNT0184800.1 2 31507045 G C
Osa02LNT0184800.1 2 31507120 T C
Osa02LNT0184800.1 2 31509211 A T
Osa02LNT0184800.1 2 31511699 A G
Osa02LNT0184800.1 2 31511799 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0184800.1 osa-miR6245 Cleavage 5.0 14.883 1 21
Osa02LNT0184800.1 osa-miR167h-3p Translation 3.0 20.179 1 21
Osa02LNT0184800.1 osa-miR1860-3p Cleavage 4.0 17.348 1 22
Osa02LNT0184800.1 osa-miR1866-5p Translation 5.0 17.535 1 24
Osa02LNT0184800.1 osa-miR1882e-3p Translation 4.5 16.639 1 24
Osa02LNT0184800.1 osa-miR2095-3p Cleavage 5.0 21.494 1 20
Osa02LNT0184800.1 osa-miR396f-5p Translation 4.5 20.591 1 22
Osa02LNT0184800.1 osa-miR2878-3p Cleavage 5.0 15.188 1 24
Osa02LNT0184800.1 osa-miR2921 Cleavage 5.0 15.589 1 24
Osa02LNT0184800.1 osa-miR5076 Cleavage 3.5 20.67 1 22
Osa02LNT0184800.1 osa-miR5082 Cleavage 5.0 21.7 1 24
Osa02LNT0184800.1 osa-miR5499 Translation 5.0 13.752 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0184800.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0184800.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0184800.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0184800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0184800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0184800.1 2 qER-2 Physiological trait Eating quality C370 C601
Osa02LNT0184800.1 2 qEL-2 Physiological trait Eating quality C370 C601
Osa02LNT0184800.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0184800.1 2 qWA-2 Physiological trait Eating quality C370 C601
Osa02LNT0184800.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0184800.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0184800.1 2 nan Morphological trait Panicle/flower RG139 CDO686
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