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

>Osa08LNT0415600.1

AACCATCAAGCAATTAGGAAAAACTGGGGCAAGATTTCACAGGTTGTGAAATATATTTTGTCAAATCAGGTTTTAGAGCAGGAAATATATGAGATAAATCTGTAGGGGCTTGAAATTGAAATGTTGATTGTTCGCCGTGATTTTACAGCATAAGAAATATAATGCTGCTAGAAATTTGATGAAAAGTCAGGGATTATAACTACCAAGCAATCAGAACAAGGTCTTGCAAATTACATGCTTGCTTCTCATAAAGTGTCCATGATTCTCAGATGGGTTATCACAAAGAGATTTGCTCCGGTCCGGCAAAAAGTATCTCAAGATACTGGTACCTCATTGTACTAAATCATTTTCGGTCGTTGGATCTAGCTGGGTAGAATGAGAATTGTTAAATCTAACAGTCGGAAACGAGGTACCATAAGGTACCGGTATTTCGAGATATTTTTTTTGTTGGACCGGATCGGAGCAAACCTCTATCACGAAACATATACTGTTCAGGTGAACCATTGATGCACTGCTTTTCTTGAAAGGAAACTCCCATTTTTTTTAACTGAACTTCTCATCGATGCACAATTATACTTACTCCCGTTTATTACCCGAACTTGTCAATATACCAACTGAGCCATAATCCATAAATATACCGGCGCCCAATTGATGCATATTTTTCTCCGTTGCAATGCACCAACATCCAAGTAGTAATTCAGTATTCCTTGCAGAAAAAATAGTACTCCCTCTGTTTCAGGTTATAAAACGTTTTGACTTTAGTCCAAGTCAAACTACTCTAAGTTTGACTAATTTTATAAAAAAAAATATAATATTTTTAACCCAAGATAAATATATTATGAACATTTATTTTTATTCAATTATAGATTTAATGAAACTATACTGGTGTTGTAAATATTACTATTTTTTTCTATAAAATTAGTCAAACTTAGAGTAGCCATCTTATAACCTGAAACGGATGGAGTAATTCAGTATTAAATATGAAGGGGATTTTTGGAGTACATTAAAGTGGACACTAGCTATTTATTGGGTTAGATCCAACGGAGATGCTGTCCTACTGCACCCGGTAGTAGTGCAGTAGAATTGGTGGAGGGGTAAATTTGTACTCCATGTGGTATGGGTATGTTTGTGTTAGATTGATCTCTGGCCATCGAGTCAGAGAATTGCTCTAATGGGCTTGGCCCACCCCAAGCCCACGCGCACCTAACGTTAAGGACCGATTCCCTCGGTCCCGAATACACGTCGCTCTTTCTAGCGCTATGATCGGAAGCGTTTTTTTCCTCAAGAAGAAATCGCCCCCGATCCCCTTAATACGCATATAAAGGGAACCTTGACTCACGGGTACGAGGGTCTACTCACACACTCTAAGCCTTCCCAAAACCCCTAAGATTACCCTCAGACTATCGATCTTAAGGCGTATTGGAGGGGAGCGAAGGGCGAATTCCCATCGCCGCCACCGCACGGTGATCTCCATCACCGGCTCCTCACGGCGACTACACCAACGCATCTAAGGCGATCAATGGCTTCTTCATCCGGTTAGTATACCACCAAATTCCGCATATGAGATATTAGGTGATCATGCATAGCCTAGGTTTATGAATTTAAGATTTAAGTACAATATTGTGGTATCAGAGCCTTCTTAGGCCTTTGCATGTTCCATCACTCCGGTGGTGAAGCCACTAAGCCGCATCAAGTCTCCCTAAGCGCCGGCTTGTTAAAGTTTTAGGGTTTATGTTCTGTTAGGTTTTGTTCATGTCGCAATTAAGTTCAATTTTGTGATTCATGTTCTGTTGATCGATATTAGACTAAGTTTTATGTTTAGATTGCTATCCCTACTCAGTTTATGGCTTGGGCAGCAATTGGAAGGAGGGGACTCAGATCGGGGTTGAGATTAAGAAAATCCCCAATTTTTTTCCCCAAGTTCCTAAAACCCGAAACCCTAATTTCTGAAATTTCCCCAAATTAAGAACAAAGCATGATGAATTCTCGAATTAGATTGATCCCGATTGGCAATTTCCCAAATCATGAGAAAACCCTAAGGAATTGGGACTCACCGATTTGGGGCTCAGGTCGTCGGAGTCTCGCCGCGCGTGGCATGAGCACCGCCGTGCGCGTGTGTCTCCGAGCTCCTCACTGTCTTCATGCGAATGGCGCATGGCTTCACGCGTCGCCGTGCATCCCCTTAGCCGCCATCTCGGACCGGCCTCACGCTCGCATCAGTCCATCGCCGCGTGAGGTCGAGGCTCGCCTCGGTGTGGCTCCGGCCGCACCTAGGAGGAGGACCGAGGCGGGAGGATGAGACGACGTGCGGCATCAGCGTCGCCGCACGTCGCCATCAAGCACGCCGCCGACTGGGGCCTCCGCATCGCCGCTCCACCGGTGACCCACCGCCGTTAGCTTGCACGGATTTTGCTCCGCCGGTGCGCCGTGGTTTTGACCGCCGCCTAAGCCGTGCGTGGCATTAGCTTGCCGCGCATGCGGGGGCCTCAGCGACGCCGCTCCGCCGGCGAGCCACCCGCCGCCCGTCTCTTCCCACCAGAGCCGTGCACGGCATTAGAGCGCCGTGCACGGGGGCCTCGGCGTCGCCGCTCTGCCGGTGAGCCGCCGCCCCGCTCTCGCCTCTTCCCACCGGTGTTCGTAGATGTCTCGACATCACCGGAACAGCATGTGGGTTGATTCGTGTTGCCGCGAATCGCGTGGAACGGCGGCGCTACTACCAACCACTGCCGCGACGCCGTCACCGCCGCCGCTGCCCCAACCCACCCCACCACCGTGCCGCCACCGCCGCCGCCGCCGTCCCCACCGTTGTGCTACCGTAGAGAGTTAGGTTTGGGGATGGATCCTTTTGAATCGGGGTCCTGTGCTGTTGAACAATTTGAGGGCTGAGATGCTAAAGTTTGTCACTAGGCGGGGTGTTTCCTGAACATTTCAACATGGGGTGACGTGGACTTATCTGGAACCTACATTTTCCATCCAAG

Coding Potentia
Explanation CPC Score
noncoding -1.34998
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0415600.1 8 21970511 T G
Osa08LNT0415600.1 8 21970862 T C
Osa08LNT0415600.1 8 21971300 T C
Osa08LNT0415600.1 8 21971418 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa08LNT0415600.1 DTM_#DNAt_MULE_japo_Os0054 Chr8 . 21970527 21970713 186
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0415600.1 osa-miR5825 Translation 3.5 11.825 1 24
Osa08LNT0415600.1 osa-miR5831 Cleavage 1.0 16.226 1 24
Osa08LNT0415600.1 osa-miR395t Cleavage 5.0 20.242 1 21
Osa08LNT0415600.1 osa-miR171c-5p Cleavage 4.0 10.453 1 21
Osa08LNT0415600.1 osa-miR437 Translation 2.5 15.945 1 21
Osa08LNT0415600.1 osa-miR390-5p Translation 3.5 14.198 1 21
Osa08LNT0415600.1 osa-miR395w Cleavage 5.0 20.242 1 22
Osa08LNT0415600.1 osa-miR1439 Cleavage 4.0 11.59 1 21
Osa08LNT0415600.1 osa-miR1850.1 Translation 5.0 6.839 1 21
Osa08LNT0415600.1 osa-miR1863a Cleavage 4.0 18.756 1 24
Osa08LNT0415600.1 osa-miR1871 Cleavage 4.0 19.054 1 24
Osa08LNT0415600.1 osa-miR2090 Cleavage 4.5 11.655 1 22
Osa08LNT0415600.1 osa-miR2275a Cleavage 4.5 24.981 1 22
Osa08LNT0415600.1 osa-miR2275b Cleavage 4.5 24.981 1 22
Osa08LNT0415600.1 osa-miR2874 Translation 4.5 12.027 1 24
Osa08LNT0415600.1 osa-miR2876-5p Cleavage 4.5 15.23 1 21
Osa08LNT0415600.1 osa-miR1863b Cleavage 4.0 18.756 1 24
Osa08LNT0415600.1 osa-miR5161 Cleavage 3.0 11.457 1 20
Osa08LNT0415600.1 osa-miR2275d Cleavage 5.0 24.981 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0415600.1 8 qPN-8 Morphological trait Seed RM223 RM80
Osa08LNT0415600.1 8 aro8-1 Physiological trait Eating quality RM223 RM80
Osa08LNT0415600.1 8 nan Resistance or Tolerance Drought tolerance RG978 RZ66
Osa08LNT0415600.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0415600.1 8 nan Physiological trait Source activity R727 R202
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