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

>Osa09LNT0450500.1

GAATTCACAAGCTCAATGATCACTACTTATGAGACCAAATCTCACAACACAGCTAAAAACAGCCGTTTCCTAGCAACAGAAGATCCAAGCTTAACTAGCAAACTATAGATGAATTTGCAGAACTCATCTAGTCTTGCACATAGTACCCAAACCGAGTATACATTGTCACACAGATTACAGGGCTACAACAAAATGAAATGGGTGCACTCAATCACTGCAGCATGACATTGAAGTTTGAACATACACTAGGGGGTACATTGCTAGGGGAAGTATTTCACATCGCAGTGGCCATGATAGTTTCATTTCCTCTGCACACTCTACTCAAAACTTTCCTGCATGGTGCAACCTCACAGACTTTTGTCAGTTTAAATGCAAGCTGTGCAATGGCAATTCTGATTGCTGGCTCTGTAGATCCACTTGTTGCAGCTTCCTCCAATAAAGCAAGGAACTCCTTCTGTGCTCTCACAGACACAAAAAGTTGACTTGGCTTATAAATCATGCTCAAATCCGCTACCTGTTGAAGCCAAGGCAATGCCAAATCAAACATTTTTTTATTCAGAAACTGGCCAGCTATAACCCTCAAAAGTTCACTTGTTGTTTCACGTGACAATTTCTCAAGAACAGGTCCAGTTCTATCCATTACGTCAATCAGATAATCACAGTCACCACTGTTCAGGGCTTCTACATATGCAGACGCCATGTCATCATTACCATCAAATTCTTTAGAAGCACGCAATGCATTTTGCAGCTCAGGCTGCTCACAGGAATTGGTAAGTGAAACTGGAAAGTTTCCCTTAACCCCTGATGCTCGAGTCCTTGCTGAGCTTGGAACATATCTTCCCAGAGCACTTTCCGATCTCACAACCCCAGGCTTTCTAGTTTTGTCATGAGTATGACTCTTTAGAAATTCCCCCTCTTTTACACCCATGTTTAAGCCCTTTGATGGTTGATCTTGCATCCACTTTTTCTCTTGTTTCAAATGAGGAATTGGTGGTGGCTTATAGTTAGCATCCACAGATGATCTAGGTGTAGAAGTAGAAACCCTCGGTGAAGAAGTGGCACTTTGGTTCTTAATAAACTTGGAACCAGGAAGGTGATAGCGGCTTTCACTTTGAGTAATTGTATACACAGTTTTGTCTACAGCATTCTCCAAATTATGCACTTTCATGCTTAATACTGACATGTTCTCCACTGAGTTAGACATGAATTCCTGCAACATATCAAAGATATTTGCTTGCTTCCTCTCCATCTCTTGAAGCTGCTTCCTGATATGAGATAGTTCTTTCATTGCACCCAAACAGCAAGTATGTGTCCCATGTGAAGTGATATCTGTAACAGTGGAGTCTATGCTCTTACTCTTTTGAGCCCTGGGGAATTGCTCAATGTCTCTTGCAGAATCACAATCCTCAACGCATTCCTGAGCAGAAGTGACATGCTTTGTCTCACAACTCCTGCTGGCTACTTCTGACATAGAGGAGCAATCTTGTTTATCATCCATGGGGTCATACTCATACTTGCTGTCATTGTCTACGATTTCATATGGACTTCTATTTGAACCCTTTAGCATGGAACCATTGCCAGACACCTTTTCTTCAAAATCAACTAATGGTATCATATTCTGCTTAGGAACAGATATCTCAACATGCCAATCGCTCAACTTCGAGCGTTGCTGATTTGCAGCATTATTCAGGGCTATTTTATTGATAGACAGAGGAGATCTCTTCTTTGATGAAGTAATAGAATTGCCACTGATTGCAGAAACAGAAGATGCAGGATCAACTCTCCTGAAAGAAGTGTCTCGTGATCCACCATCATTTATACTTCTACCATCATGATGGTCACCAAAGAAGTTTTCTTTTGTGGATGATCCAGCTTCTGATGGCTCGGGAGTATCAGACCCTGGAATAACCTTCCACAACTGAATGGCTTGGGTAATTGCATCACGCACTGGTTTGACCTTGTCAAATTTAGAACGTTCAAGGGAGCGAAGGCAGGAAGTTCTAAAGGAGGCAACCAGATATCCAGAACTGAGAGCAATACTAGATAGAGCTATTGAAGCTGCTTTCCTTGTAGTCCAATCACTACTCTTCAGGGCATCCATAATACTTGTTAGAGCAGATGTTAAAGACTGCTCTGTAGAAGCACCTTCAGCCTGAATAATACTTCTGATCAACTCAATCACTGCAGGCTTTGCCATGAAATGGGGATTCTTGAGCAGTTTAACAACACGAACAAGCATCTGCGGCAGAACAGGGCCAGGGAAGTAATTGCTCTCGTCAATAACCTTGGCCAAGCAAGACGCTGCCCCAGCCTGAACATACCTATTCTGCTCACCAAGTGATTCAAACAAGGGCCGCACCAACGCAACCAATGCAGCGCCACCATCCCCATAGCCTCTAGCACACAATGCGAGGGTACCACAGGTATCAACACAGGCGTCCCTCACAACAGAGTCAGCATCCTTGAGGCGCTTGACAATGCTGGTCACCATCTTCGTCATGTGAGGTGCCACTAGGCTTCCATGGGACCGAGCCAATGTGCCAATCACCTTGATGCACTCCTTCCTCACCGCACTCTTCTGCTCGGCATCGGTGTCAACCACGCAAGACAAGAAGGGACCAACCATGTCAGGAGGCAAGGTGTCAGCGGCCTTCTCAAGCTCATCCAATCCAATCTGGTAGGTGTCCCTGTCTGCAATCTTGTTGATGGCCTGGACCAGCCTGTGCTTCAGCTCGAACACGGCCTTGCCTTTGGAGGTAACCGCATTGGACTTCATCTTGGCAGCCTAGAAGGCTAGAACACTCTTGCTGCAAGATACACAGCTGAGGCACCAACTTAGCAGAGAGCTCAGTAGCTCAGAGTAACATGGATACTGAGGGGAACAGTGGCTTCTCCCATTGGGGAATGGAGGTCGTGTTTCCTGTAGATTCCCCACCCATCACCTGATCTGGTTGGAGCAGTGGGATCTCCTTGCTCGAGTCGGAAGCCTCGCCTCGCGCTCGCGGCCGTCGCCTCCTCTCCTCGCCTCGCCTATCCAGAGGGGAGAGCGATCTGCTCCTTCTCTCTCCACGCCGAGGAGAGGAGG

Coding Potentia
Explanation CPC Score
noncoding -1.12989
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0450500.1 9 22249346 A G
Osa09LNT0450500.1 9 22249868 C T
Osa09LNT0450500.1 9 22250761 A C
Osa09LNT0450500.1 9 22250926 G C
Osa09LNT0450500.1 9 22250971 T C
Osa09LNT0450500.1 9 22251465 A C
Osa09LNT0450500.1 9 22252329 A T
Osa09LNT0450500.1 9 22253663 T A
Osa09LNT0450500.1 9 22254034 A C
Osa09LNT0450500.1 9 22254252 G A
Osa09LNT0450500.1 9 22254287 A C
Osa09LNT0450500.1 9 22254288 T A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0450500.1 osa-miR6247 Cleavage 3.0 13.232 1 21
Osa09LNT0450500.1 osa-miR171g Translation 5.0 13.668 1 21
Osa09LNT0450500.1 osa-miR2864.1 Translation 4.5 22.28 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0450500.1 9 nan Morphological trait Root RM215 RM205
Osa09LNT0450500.1 9 Spk(t) Morphological trait Culm/leaf nan nan
Osa09LNT0450500.1 9 nan Morphological trait Root RG667 RZ404
Osa09LNT0450500.1 9 yldp9.1 Morphological trait Seed RM242 RM205
Osa09LNT0450500.1 9 qTN-9-2 Morphological trait Culm/leaf RM215 RZ404
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