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

>Osa04LNT0261100.2

GGAAGTACAAACATGACAAAGTATGATATATACAGGTGATTGGCTGCAAGTCTATGATGAACAATGGACTATCTATGCTCAATTGGCTGTTAACCTAGGTAGCTTGATTCCATCTATGATTTTATTACCAGTATTGACTCTCTTACTATGTGACGTTGAGTTGAAAGACAGATCAGATTTCTTGCAAACTCATCATCACTGACATCAATATGTAGCCAGCACACATGCCATAGGAAAGAATGAAGAATCCATAGCTATCCTGATAATTGACAAATATAAGAATTAATCTTAATGATTTGTTTTTTATATGGTGTATAATACAAATAAAGAGCATCTTCACATGATTCTTCGTGAACTAAAGCATCAGATGAATTTAGAATAAGAAATGTCATATATGAAGGGCAATATGTACTTTTATGAATGATAATTTTATCCTTGAATAGAGCAAAAGATCATTTACAAACAAATAGAATGTCAACATGTATATGAGATGCTCTTTTTTTTTCATCTGTGGATCATTGTGGAAATGGAAACCATGATATTAACGGTAATATTCATGGCAAGGATATTGCTTGTAAGATTTGACTGTGTTTAAGAAGGAATTTACCTTCGGAACTAAAGATGGAATAACATGTGCAGGAGCCGTAGGATATTGTATGATTTTAATGTAAAGTCTGATGAACTTGTCAGTAATTTTGCATAGCTGTCATCACAATCATCAAGCTGCAACATTTGTATCAAGACATAACTTAGCAGTTAGCACATTTGAATGTTGCGATCCAAAAAGAAAAATAATGCAAAAGCTTTTGCATGAGATAAATATGAGTAAATCCAATGTATAAATTGCAACAGAGCATCTCCTATGTATGATTTATGAGTCTTTTTACCATTCAACATTTGGTACCTCGAGGTACTACAATTTTTTGGTACCTCGAGGTACGAACTGTTGGATGGCAAAATTGCTCATGATTTATGGCACATGAAAATGAATTGATGGCTTAGACTATAAATGAGCAGCAGTAGTCTAGGAAAGCTTCTCTCATATAGATACACTAAAAATGTAACTATGGTTTGGGGTTTTAAGGTACAGGTTTTCCATAAGATTGTTGCTCCAAGCAGTAAACATCTTCTGGCATGAAAGGCGGTACATTCTTCTCATCAGTCAATTAGGAACCTGCAAGGAAAAGAAGATTAGCCTCCATGCCATCATAATTGCTTGAGCTATAGGAAGACAGGCAAGTGCTTCCCTTCCTGCCACCATAGCCGGAGGACAGCAAAGCCGAGGTTGAGCAGTCACACAAACAACCAATAGCTGCATAACTTGCACAGATCGATTCATCGTTGAACTGTTGAAGGACGTAAAACTTAAGTTTATGCGCTATACCCTGCCGCCTCAGCTCGTCCGCCGCAATGCGCATTACCTACCAAAACCCTAGCTACAACATGAGACAACCAAATCTGGATAGAGACCAAATGGAGGATGGTAGAATGGGATGCTATGTCATGTGTGGCGAAGCCGGGGGTAATCTAGAGCCCAGATGGCCATACCTGGACCTGTGGTCGGTTCTCAATGGCGCACTGTTTGGAATCCTCATTGTGACCGGCAGCAACCGAGAACCCCCAACCATAGCCGACGCTGATTCAGTAAGGAGAACGGAGGGAAGGAGTCGGCGGGGAAGAACGGAGGGGCGAAGCTGAATGGGATCGATGGGCGATGAGGTGGAGACGCCGATTTCTGATTTCTCCGCGGTAATGGGGATCGATGGGGAATTGGGGATTGGTGAGC

Coding Potentia
Explanation CPC Score
noncoding -1.21127
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0261100.2 osa-miR5827 Cleavage 4.0 11.671 1 21
Osa04LNT0261100.2 osa-miR814a Translation 5.0 19.826 1 22
Osa04LNT0261100.2 osa-miR814b Translation 5.0 19.826 1 22
Osa04LNT0261100.2 osa-miR814c Translation 5.0 19.826 1 22
Osa04LNT0261100.2 osa-miR1438 Translation 4.0 14.794 1 22
Osa04LNT0261100.2 osa-miR1854-5p Cleavage 4.5 10.814 1 21
Osa04LNT0261100.2 osa-miR1870-3p Cleavage 5.0 17.115 1 24
Osa04LNT0261100.2 osa-miR2099-3p Translation 5.0 14.932 1 20
Osa04LNT0261100.2 osa-miR5148a Cleavage 4.5 14.852 1 24
Osa04LNT0261100.2 osa-miR5148b Cleavage 4.5 14.852 1 24
Osa04LNT0261100.2 osa-miR5148c Cleavage 4.5 14.852 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0261100.2 4 qNOT4-2 Resistance or Tolerance Drought tolerance RG449 RG788
Osa04LNT0261100.2 4 qFRP4-1 Physiological trait Source activity RG449 RG788
Osa04LNT0261100.2 4 nan Morphological trait Root RG449 RG788
Osa04LNT0261100.2 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0261100.2 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0261100.2 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0261100.2 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0261100.2 4 nan Morphological trait Panicle/flower RG788 RZ69
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