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

>Osa02LNT0145100.1

CCCAGAGAAATTTATTAAGACAGTTTATCTTCATGGATACAAATACAACAACAACAAATCATGTTTAAGTTTCACTCTCTTCCTATACTGTTTCCCAGCGAATTATGTTTACCAGGTCTTGACAATATATACAACATCAGGTAGTATATAAGTAAGTACATATTTGTATAGGGTGATGAGGTGCTCAGTAACATCTGTAGCATATATAAGAGATTCATGGCATGCCATCGACCCCTTCCTTTATCACAATGCCATGCTCATGCATGCCTCTTTTAGCGGAGATGCCAGCAGTACTCTCCAAGAGCCCAGATGGGGAATATGTTGCGGTAGTTGGGGTAATTGAAGAAGAGGGAGCAATTGAAGCATCCAACGTGTTCTTGTTGGGGAAACTCCCCTGTTTCTAACTGCATATTGATTAATTCTTTTGCAGCACAATGCAGTGGGGTTGGATCTCGCTCCATCTTACATCCAAATTAAATAGTTACAGAGATCATTGATAAACAAGTTATTCCTATCAGAATTAAATTGAGAATACAAAAAACATACCTGTCCAGCATAAATTAAAGTCAGCATTGCCCAAGCAGTATTCACTACATGAGCACGATCACCTTTGATGTTTACATAGACCTTAGTTTCATTAGAAACGTGGCTTTCTCCCCATCCGCCAGTATTGAGCTGTTTTGACAATATAAAGTCGCATGCTTTCCTGATGGAAGAACTATTCTCATATGTTCTTCCAGCAGCAATTAATCCTTGTACTGAAAAGAAGGCCCCATAGGTGAAGCATACACCCCAAGTGCCTAGCCATGAGCCATCTTTGCGTTGCGTGTTCTCAATAAACATTGATGCGTTTCTAACACATTCTTCTATCTCTTCAGTACGGTAACCAGGGCATAGTTCTTTGAACAGCACCAAAGCTTGAAGCACTGAGGAGGTACATTCTGGATATGGATAATCAACCACCATATTTGGAAAACTCTCGCAAGGCTTGAGAATCTCTATCCAAGTAGAAGTTCTTTTACATTCATATGTAGAAATGGTACCATCTTTGTTCACAAAAGATAGGAGGCAATCAACAGCATCATACAGCCTTTCTCTTTCAATGGGATCCCCAACCATGCTACTAGATATCTTTGTCAGCAACAATACAGCCTTCAGTGCTTCTGCTGTAGTGTCAGACACAGCCCACCCATTGTCTGCAGAGGAAAGAGTCCAAGAACCCTTTGATCTATGGCGATGCCAGTAACTTTGGTCACCAGGATGATTCCTTACAACCTGGGAATTTTTCATGAATTCGTGGGCTCTCTGAACAGTTGAAGCATACTCATTTACAAGATCAGTGGCACAAAACGCTTGAATTATTAATGCTGTTTCCCAGCTTTGGCAACCATCATATACCTGCGCCTTCATGCCATCTTCTGAAAGCCACAAGAAATCAGGTACCCTCGCAAGATGCCTCTTGAATGCGTCTGAATTTGGATCTTCCGCCCAGCAGCAGACCATGTTTAGAGCCTTGTTGACAGAGCAAATGCAGAGGTACTGCGTGTTCTCGTCCTCGTAATGGATGTGCTCCATGAGTGCATCCAAAGCTCTCCCCCTCAGCTTGTTCATCGCCCAGCTGCTCATCACCGGCTCCACCCACTTGTACAGCCAACTCCACACCGCGTTCTGCAGCCGCGTCCTCGGGCAGACCAGATCCTCCTGCCACCACCAAAATCCAGAGCATGACGAACAGTTAGAGGAGAGAGAGAGACAGGGGGGATGGAGGAGGAACGGCGCCGCCGGAAGGAGGGCGAGTCGCCACTGCCGCCGCCGCCGCCGCCACCGGCGGCGAGAATCGCCGCCTCACGACGGGCCACGCCTCCCCCAAAAAGAAGCACAATTACGT

Coding Potentia
Explanation CPC Score
noncoding -1.12194
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0145100.1 2 2148951 G A
Osa02LNT0145100.1 2 2149935 T G
Osa02LNT0145100.1 2 2150115 A G
Osa02LNT0145100.1 2 2150656 A G
Osa02LNT0145100.1 2 2150678 C A
Osa02LNT0145100.1 2 2150731 T C
Osa02LNT0145100.1 2 2152447 T A
Osa02LNT0145100.1 2 2152706 A G
Osa02LNT0145100.1 2 2153201 T G
Osa02LNT0145100.1 2 2153239 T C
Osa02LNT0145100.1 2 2152682 T G
Osa02LNT0145100.1 2 2153232 G A
Osa02LNT0145100.1 2 2150094 G T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0145100.1 osa-miR528-5p Cleavage 4.5 23.839 1 21
Osa02LNT0145100.1 osa-miR2931 Cleavage 3.5 11.977 1 20
Osa02LNT0145100.1 osa-miR3979-5p Cleavage 5.0 17.548 1 20
Osa02LNT0145100.1 osa-miR5519 Cleavage 5.0 17.587 1 21
Osa02LNT0145100.1 osa-miR5836 Translation 4.0 14.426 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0145100.1 2 S29(t) Physiological trait Sterility nan nan
Osa02LNT0145100.1 2 rb2 Physiological trait Eating quality RM236 RM279
Osa02LNT0145100.1 2 qWIJ-2 Morphological trait Seed RM233A RM8
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