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

>Osa05LNT0305900.1

GTGAAACTACACAAGGTTTTACATTTCAATCTCGTTAAACACCTCACAAGAATCTGCACGCACACTACATATGAAATCCCCTCATTGTTCATGTCATATTTACAGATGGATGCAAAGTAGGTTCATTTCAAGAGCAAAGTTACAAATACTGGCACGCTGGTCAGGCTGCCTCGGTGGAGATGATCTCGAGCTCGGCCCACCAGAGCGGCGACACCTTGGGGGTGGCGGCGTCGGGCGGCATGGCGGTGATCTCCCTGAGCCGGGCCGCGACGTCGGCCATGGAGGGGCGCCGCCTCGGGTCGCGGTCGGCGCAGGACCGGACGACGGCGTCCAGGCGGTCGACGGTCTCGGCGTGGAAGGCGCCCCGCAGCGCCGGGTCCATGACGTCCCGCAGCCGCCGCTCCCCGCGGAGGAGCGCCGCCGCCCACCCCTGCACCAGCCCGCCCTCCGACGCCGCGAGCCGCCCCGCCATCATCTCCAGCAGCAGCATCCCGTACCCGTGCACCACGCTCTCCCTGTCCGCCATCGCCGGCGCCGCCGCCGCCGCCGCCATCTCCTCCTCGCAGAAGCCCACGTCGGAGATCTTGGCGGCGAAGTCGTCGGTGAGGTAGACGGTGGAGGCGTCCAGCGTCCGGACGATCTCCGGCGGGGCGAGCTGGTGCATGTGCTCCAGGCAGTAGGCGACGCCGACCGCCACGCGCAGCCGCGTCGGCCAGTCCAGGTGCCCCTCGTCCCTCGCGTGGAGATGCTCGAATAGTGTGCCGTTTGGGGCGTACTCGAACACCATCATCCTCGTGAACGGCTGCTCCTCCTCGCAGTAGCCAAGAAGGTTCACAAAGTTCTTGTGGTTCACCCTCGACAGGCTCGTTATCTTCTTTCTGAAGTGTGCCTCGCACTTCTTGGACCAGTCCTTGGGCGACGTCTTGGTGGTGGAGACGACGGCGATCTCGACGCCGCTGGAGAGCGTCCCCTTGTACATGGTGTACTCCGGCAGCGAGCCGATGACGTTGCTGAAGTCCTCGCACGCCGCCTCCAGCTCCGCCCTCCTCAACGCCGGCACCCCCGTCACGAACGCCCTCTGCAGCTGCCCGCTCAGCCCCGTCGCCCACGGCCGCACGCTCCTCACCACCTTGCTCGACCGGTAGCACGCCGCGAACGCCGCCGCCGACGCCGCAAGAAGCACCGACGCCCCCGCCGCCGCCACAAGAACGTAGTTCGTCTTGCCGCCGCCGCCGCCGCGCCTCGTTGCGCTCCCGTCCGTCACCTCCGGCCGGCTGGTTTCGCCGGCGTCGCCGGAGCTAGACGCCGGCGGCAACGCGATGCTGCGGGGGCGCGCGTGTTCCTCGCCGCGCCGCGGCGGGGCCGCGTGCTCGGCGACCGCGGCCGACGACGCTGGCGAAGGCGCAGGGGAAGGCGAAGGCGAGGGCGAGCTCGACGGGCCCTGGACCGGCGGCATGTCGAGCCATGGCGGCCAGTCCTTGAGCGGCGGCGGCGGCGGCAGCAGCATCGGGAGTCCGAACGGGTTCGACGGCGTCGACGACGTCGACGGCCATCCGGCCTTGCTGCCGGCCTGCCTGCTCCGCTGCTGCTGCTGCTGCTGCTGCGAAGATGATGATGACTTCTTGGCATGGATCAACCTGCGAATGATTGAGCAGAGATGAGGCTAAAGTTGACGAGCAATTGGACAAGAACATGCGTGCAGCCCGGATGGGGTCGAATGGTTGGTTGTTCAGCTGTCCATCTCTGACAGCCACGACAACATTCCTAGCACAAATTTTTTTCCTACCATTCTATATCTACTTTGATTTCTATGGAAAAATGTCTTTGTGATGAACATTCACGGATAATTCAGGCAAATTTGGCCTATGCTTGTTCAAATGCAGGGGAAACTTGTGATGGAAGAGAAGAAGAAATTATGCCCAAGCTGCAACCTAATTATAACACTGTGAATTATTATTTCCTTAAAGGAAACTCTATTATTGCGGTTTTTTGAAAATAAACTTTATTACTACTGCCTATAATTAAGAGTCTCTGAATTTTGTCAAAATTTAGACTGAAATTCAGGGCATGTACGAACATGAAAGTGAGCCAAGAAAACATCAATCGTTCTCACCGAGCTGCAGGGCGCACGCCTCGCCGAGCACCATGGCCGCCGCCGCCGCCGCCGCTGATCCCAAGCTGAAGCTGCAAGCAGAGCAGCAGCAGCACAGCCACCGCCACCCTGCTCATCCTCTCCATGAAGAGCAGGACGGTCTTAAGAAGGGAAAGAGAGAGAAGCCTGCAGCAATGGCGATGATGATGGAGCTCTTGCAGAGGAGGCAGGGAAAGCAATGCAAGAGAGATAAGCTTAAGCCAAGCTAAGCTAGGCAGCAGCAAGAAGCAGAGGCGAGAAGATGATTTGGGCGTGACCACTGCGGCGAGCTAGCGAGAGCCACGCCGCCCACGGCACGCGGCGACAATAAATTCTTGTGCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.652119
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0305900.1 5 16703102 A C
Osa05LNT0305900.1 5 16703402 T C
Osa05LNT0305900.1 5 16704626 C T
Osa05LNT0305900.1 5 16704634 T 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
Osa05LNT0305900.1 osa-miR5837.2 Cleavage 3.5 17.468 1 21
Osa05LNT0305900.1 osa-miR166d-5p Translation 5.0 17.125 1 21
Osa05LNT0305900.1 osa-miR1430 Cleavage 3.0 21.09 1 21
Osa05LNT0305900.1 osa-miR5488 Translation 4.5 16.094 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0305900.1 5 QKw5 Morphological trait Seed RG182 RG13
Osa05LNT0305900.1 5 qLTG-5 Resistance or Tolerance Cold tolerance RM249 RG13
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