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

>Osa09LNT0450100.2

GAAAAAAAACGAAAACACTAACTTTATCCATAATATCGAACTGGCAAGAATTCACTAAATACATGGTCAAGGATCACGTCGTAATGAACTCCATCAATCATCACATATACCCAAAGATGTCATATGATACAACAAATTTACTTCTTCTACCGTTACCTGGGATACTACTGCAGAAAACAACGCAACTCCCCGTAATGGAAAAGGAAATCGTGTCAGAACGTGAAATGACACTCGCTACACAAAAGCCTAAACTAAAATTGGCCAAAAATTTGCCAATATCCAATGAGCTGTATTCTCCTGTCCAATGTCCAAAAATCCAACGCTTTGCCAGGGAAACTACATCTGACAAAATTCTTCCTGAACTGATCCCCTCTGGGAACTGTATATACTATTTGCCATCCAAGTCATGACTCACGACGACTCCGGTTCTGACTTCGAAAACTCCTGAGGCTCACTGCTGGCAAATGCTAGCCAGACAGCAGTACCCGTCAGGTAAAAAAATATCGAAGGTGCGAAAAGTGATATACTCCAAGAATGAGTTGTATCAAGAAGATAGCCTGTTAGTGCAACGCCAACTATTCCAGGTACAGCACCTACAGTGTTTGTGATGCCCAGCAGAATGCTTGCATACTCACGAGAAATATCTTGATGGGTGCAATAAAGACCTGACAATGCGAAGCTGGAGAGTGCCAGACCACTTGTAAGAAAAGCAACAATTTCCCACGGTGGCACACCAAGATCCACAGAGGAAAGCATCATGAAAGTTGCAGGTGACAGAAATGCAATTGTTTGACATATCTTTCGTACCTTTGTGGTGTCTACTCCATTTGATATCAAGTTGTCTGCAAAAGGTGCAGCAATAGATGTAATGATCATTGAGCCCAAAGGAGGAAGGACTGACACCCATGCTGCTTCAGTCAAATTCAGGTCCAGCTCCTCACTAAAGAATGTTGGTAGCCAAGACAAGCAAGTATAGTGCCCCCAGCTTCCACAAAAGTGAGCATATATCATTGCCCACACTGCCTTGCTTTTGAAAAATTCTCTCCAAGGAACATCCTTTAGTGAATTCATCAGCTCTCCCAATGATGACTCCGATGATTTTGGAGACACAGAGGACGAGATGAGGTCACTTGATCCAGAAGGACTCTGCCCCAAATCTTGTATTACTTGTATATCTTCATTGCCCCTTAACTGTTGTTCTTTAAGAGATTGAAACCCTAGACACCTATGAAAAAAATGAATGGGAAGTTAAACAGAATAAATAATATTTCATCTGCTTATTAGAGATGTTTCCTCACCAAATAATTCCAAGAAGTCCAAATATGTAAAAGACAGATTCCCAGCCAAGGTTCTGAATAATAGGTGGGGCGAACAATAGTCCTAATACGCTTCCAAAGCTCAAACCACCAAACACAACAGCAACTGCTCTTGATCGTTCTTGAACAGGGATGGACCTTGCAATCAAATCTGTAGCAGCTGATGGTGATACACCTTCTCCAATACCTACCAGAATCCTTGACAACACAAGCCCTGGCATAAACCCTGCTACAGCAGGGATAATGGCAGTTGCCAAAGACCAAGCCACAACTCCAATCTCAAGTACTCTCCGCAAACAAACCTTCCGCCAAACAATTTTGCTAGCCATCCACCTGGCAGTTGACTCAAAGCATAACCCCAAAAGAATGACGATTGGACTAATCCAGCAGTCGATGAGTTCCAACCATACTGGTGTGACATTGGTATAATTGCAACACTCAAGTTAACCTTGTCCATGTTACAAATGACGAAAGCGAGCGAGGTGGCGCCGATGAGCTTGTACCGCTCGGCCAGTCCCTCCCACGGCGGCCACCTCATCTCCAACGCCGCCGCCGCCGCCACATCCCCCTCC

Coding Potentia
Explanation CPC Score
noncoding -1.05124
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0450100.2 9 22108352 G A
Osa09LNT0450100.2 9 22108386 A C
Osa09LNT0450100.2 9 22111234 A G
Osa09LNT0450100.2 9 22111284 C T
Osa09LNT0450100.2 9 22111293 G A
Osa09LNT0450100.2 9 22111783 G A
Osa09LNT0450100.2 9 22112224 A C
Osa09LNT0450100.2 9 22112870 A G
Osa09LNT0450100.2 9 22113062 C T
Osa09LNT0450100.2 9 22107929 C A
Osa09LNT0450100.2 9 22107808 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
Osa09LNT0450100.2 osa-miR6245 Cleavage 5.0 17.826 1 21
Osa09LNT0450100.2 osa-miR395f Cleavage 5.0 7.795 1 21
Osa09LNT0450100.2 osa-miR444d.3 Cleavage 5.0 16.494 1 21
Osa09LNT0450100.2 osa-miR810b.2 Cleavage 5.0 15.897 1 21
Osa09LNT0450100.2 osa-miR2118h Translation 4.0 17.627 1 22
Osa09LNT0450100.2 osa-miR2118k Translation 4.0 17.627 1 22
Osa09LNT0450100.2 osa-miR2863a Translation 4.0 15.049 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0450100.2 9 nan Morphological trait Root RG667 RZ404
Osa09LNT0450100.2 9 yldp9.1 Morphological trait Seed RM242 RM205
Osa09LNT0450100.2 9 qTN-9-2 Morphological trait Culm/leaf RM215 RZ404
Osa09LNT0450100.2 9 nan Morphological trait Root RM215 RM205
Osa09LNT0450100.2 9 Spk(t) Morphological trait Culm/leaf nan nan
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