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

>Osa02LNT0187700.1

TTGCAAGTTGCAACACTCAATATCCAGCAATCTCGATCTATAATTAATTGAGTACATATAATTGCTAAAGGCGGTTTAAGTAACATGCTGGATAGACCTAACAACAGTGATTGACAGAAACACGGTATAAGCAAGTGATGAAGATATTCCACTTCAAGGAACTGAGAAGCAAGCAGCTATGCAGGTACATGCATTACATGGTTGGGTCGAATAATTACAGTGAACTCGGTAATTCTAGCAAAATTCTGATAAACACACGATATTTGACCATTTTTGAGCGCCGTAACCGTAAGCGGGGTGAGTAATAGATATGACATGCCTGTGGCCTCACCTGCTGGGAACTGCACTGCACGCGAGCTAGGTTTCGTAATTAGTAGTTCTCCACAATTCTGAGTACCGACGAATATGTTCCAAGAGCAGCGCTTATGGTGCCCAATATTATTATACCAATACTTGCAACGACCTGGGCAGTCGTTGCTTTATTTTGCCTAATCTTCAAGAAGCACAGTGCAGGCATTATGACGGCCACAAGTATACTCAACAGAGATCCAATAAGAGCCATCACGAGACCGAAAAATGGCATAAGAAACGCAATGCACACGGTTGATGCAACAAGGGCAGTCCTCAGTATAATAGAGCAGATTGTTTCGTTCAAAAATCCTTCAGGGCGCAACTCCTCTAAACTCCGAGCCAATGGGTTTAACAACAGGGCATATTTGGTGAAAGGGTTGATAACCGTGGTCCACAGTGCGACCTTGGAGGCAAATGAATGTTTAGGAAGATTCAGAGTTATTTGCGAGAGAGTTTTATCTCCGAACATGAGATAGCCAATGATAGCAAACGAGCCATATATTGCTGTGCAAATTGCAAAGCATATAAACAGTGCCTTAGTGAATTTCGTGCGGTCTGACATTGATTGGTAAATATTTGGAAACACTGAGTGCCCAGAGTAGCAGAAACCATAAATGCCAATAGCAAACGGTATACCACCTAAGTTTACTGCTTTCCCAGTCAAATGAAACCCTACGCCATCAGTAGCGCCAACTAAAACGACAGAGAGGAAAACAAGAAGAGTTGCAATAACACCACCCGCAGAAAGGTAGGAGAGAACCCGAAGATCTCTCAACCATACTGTAGGCAAGACTATTAGAGCAGTCAACACTCCAAAGAAATGTTTCCCATCAATATGGACGCCAAGCCAATCAAAACCAATATGAGAGAAAATTGATGTCATATTATCTCCTTCCAAAATAATGAATTCCACACAATATGAATATAGCTCAGTATAGAGTATAATAGAGATCAGCAGACGACCAATCCTTCCAAAAGCAGCCTCGCCAATGTCTGGATATGTAGAAATACCATCTTTGCTCTCAAAACAGTGTTTCATCAGAACTCCAGTATAACAGCAAACAATAGCAAACATAGCTAGGACCGCAAGGCCTACCCATCCAGCTTCATGAATTGTAAATGGAGTGGAAAGAAGTCCAACACCAGCAAGTACATTAACCCCATTGAACACCGTCTGTGTCACACTGCATCCTTGAGCGATGTAGACTTCTCCAGTATGTTGCGTAAGTAACGAGCTTTTCCTATCTATTGCTGAACCAAGAGTCTTTCTCAAGCTCTTGACAGAGTCTTGCTTCCCATCTAGCTTATCAGACAACAAGGGCAACTTCAGGTCGGATCCCAGACTACTACGACCACCATCAAGGATCGAGTATTTGCTTGTAGAGGGACCCAAGTAACCAAAGCTCGGAGATGCAGCAATTGTATAGGTGTCAGTTGTTTCTCGGTAGCTCTGCGGCCACTGGCGGGACTGGAACGAGCGAGGCGATCCCAAACCTTCGCCGTCGTCATCCCGGTCGTCGTCGCCGCTCCCGCCGTCCTCGTAGTCGTCGTCGAAGCTGCGGCGCGGGCTCTCCTCGATGTCGCCGTCCTCCAGCGTCATCTCCTCCTCGTCCTCCTCCTCCTCCTTCCGGTGCTTCGCCTCCGCCGCCGCCGCCGCCGCTGCCATCTCGCAGTACGTTCACAGCAGCGGGCGAAACGCACAAGTGGAAGCACACGAGGTTGGAATTGGATTGCGTGTGGTGGAATCGGGGGGAGAGAGAGAGAGAGAGGAGGCTTCGGGAGAGATGGCGAAGCGGAGGCAGGTATTGATGGCTGGGATTGGGTTGGAGT

Coding Potentia
Explanation CPC Score
noncoding -1.0297
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0187700.1 2 33512025 T C
Osa02LNT0187700.1 2 33512117 C T
Osa02LNT0187700.1 2 33512147 A C
Osa02LNT0187700.1 2 33512374 G A
Osa02LNT0187700.1 2 33513279 A G
Osa02LNT0187700.1 2 33513647 A C
Osa02LNT0187700.1 2 33513661 T A
Osa02LNT0187700.1 2 33515387 T C
Osa02LNT0187700.1 2 33516557 T C
Osa02LNT0187700.1 2 33517616 T 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
Osa02LNT0187700.1 osa-miR5819 Cleavage 4.0 20.695 1 21
Osa02LNT0187700.1 osa-miR5819 Cleavage 5.0 13.367 1 21
Osa02LNT0187700.1 osa-miR1320-3p Cleavage 5.0 16.478 1 21
Osa02LNT0187700.1 osa-miR2118c Cleavage 4.0 10.242 1 22
Osa02LNT0187700.1 osa-miR2118q Cleavage 4.0 10.242 1 22
Osa02LNT0187700.1 osa-miR5158 Cleavage 4.5 12.031 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0187700.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0187700.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0187700.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0187700.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0187700.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0187700.1 2 Hd7 Physiological trait Flowering R3393 R2511
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