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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa04LNT0287800.1

CAAAACCTAAAGCCATCTTTTTGTTGGTTTTATCAACACGATCTTCCAACTATGCAATAATACATAAGGTGCCCTCCTAACTCTCCAAAGTGGAAAAACATACAAGGTACCCTTCCGAAAAATATATTGACGACCAATCAGAGAGAACAAAACAGGACAGGGGAACACCTCCAGCCATCCAAATATTTACAGTCACTTGTGTGCGTGTTACTCACTCCCGAATCAAGTGTCTGGTGTATTCATTTCGCTGGATACCCAACCAGGTACAACAACAGCAACTCGCTCGCCCGTTGCGCATACCCCCGCAAGCAGCTGCAGGCCTCAATTTCCGGTGCTTTCAACAGCTTTCAACTCGGGCAGGTAGGCAGGCGGGCAGACAATCAGATCACTGGAAAACAATCTCGCTGGAAGAAAGAAACGCCGGGACTGTTCCTGGCGCTCGCTCACTCGGTGCGGCAACTTAGCCTTCTTCATGGTACACGAAACTTGGGCGGCGGAGCTCCAGCCATCTGCTCTTTTTTTTCCTTTTCAAGTCCTTGTTTTCGTGTATGTTTATACTAGCTTCGCGGTTCTTGCTTCATATGAGAGGTTTGCGTTACGCCATACGAAGGAACATGTTTGAATCTCTTGTGATTACGGGTCCCCTCTTACCATTCTGTCCAGCTGAAGAAGTGAACTCAGATGGTCTTCGTTTACTTGCACTGGCAATTGGGGCATCTGGCCCATGATACCAGGCGTCTCGCTCATTCTGCTTAAAATATTTTTGAAGTTGTTGTTTGTCCGAAAAAAGAGATCCGTGTTCTCTCCCGTCTTGAATGTTTCGATATTTGTGGCGATTTGGTTGAGTAAATGATTGTTTTCTTCCAGGAGATGCTGTGTTGCACTATCCACGACAGGAACTTCTTCCTTAGGAACCTGACATTGCTGATTTGTATGTTGCATCGATATTGAGAAAGGGGTCACAGTGTTTGCAGGTGCCAGGTGAAAATTAGCCATGGAGGCAGATGCAACCATCTTGTCCTGGATTGGCTTCATGTCTCTTATCTTTTTCCCTGTATAAAATCCATCAGGTTTCTTCCTTCTATCTTTACTTGTAGCCCACCAACACCGCAATGCAACATCCCTGACAGTCCTGTTGGGTAGCATAGCTGCTATTTTTATGTACTTCATGATATTCGGTTCGCGAGCATATCTCACAAGCCCTTCCTTCAGTGTGTTCAGCTCACGGTCATTCCAATCTGAAGGCGAACCAGTGACGAACTTGTACTTGGGCGCCACCGTGCTACTGAACGCATCCCCCGACGAGCTCCTCGACGGGCCGGCCACCGATGCGTTGCCCAGCACACCGGTGTTCGGAGAGACGAACAGCCCAGCGCTGCTACTAGTCCCGTTCATGCTCCTCGGGGCCATCACCATACCGGCCGCAGCGCCGGCGCCACCGCCCAAGTCGCTGTTAGATTGGAAGGAGAGCATGTGATGGTTGTACATCGAGGCCGTGATCCCCTGATGGAATCCCATGCTGGAATCGGCGGCCATCTCACAGAAACAACCAAAATTCTCGATCTAATCCTCCATAAACACGCCCCAAATCCTCAGGGCGCTCAATTTGGATCAAACCTGCACAAATCGAGCCAGGAAAAAAATCTCACCCAATTGAAACGAAACGAGTAACTGACAGAGAACGACTTTTTTTTTTCAGCAGAGGATCGAAAAGCTCGACGAATCCCACGAACTCCAGCACGATCACCAAGGGAATTCCTCCCTCGAGAGTCGTGCACGCGTCACACTCAGCTTCGCATTCCCGACTCCCGAGGAGGATCCGATCGAGAGGCCCT

Coding Potentia
Explanation CPC Score
noncoding -1.07735
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0287800.1 4 34347104 C 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
Osa04LNT0287800.1 osa-miR5812 Cleavage 4.0 11.69 1 24
Osa04LNT0287800.1 osa-miR160a-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.1 osa-miR160b-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.1 osa-miR160c-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.1 osa-miR160c-3p Cleavage 4.5 14.397 1 21
Osa04LNT0287800.1 osa-miR160d-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.1 osa-miR160e-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.1 osa-miR166k-5p Translation 3.5 11.336 1 21
Osa04LNT0287800.1 osa-miR1429-5p Translation 5.0 16.919 1 21
Osa04LNT0287800.1 osa-miR1852 Translation 5.0 18.331 1 21
Osa04LNT0287800.1 osa-miR1874-3p Cleavage 4.5 16.926 1 24
Osa04LNT0287800.1 osa-miR2878-3p Cleavage 4.5 9.917 1 24
Osa04LNT0287800.1 osa-miR5499 Translation 3.0 7.814 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0287800.1 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0287800.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0287800.1 4 nan Resistance or Tolerance Drought tolerance RG143 RG620
Osa04LNT0287800.1 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
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