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

>Osa01LNT0001300.2

GCCATGGAATGCCTAATTGCCATTCTGGCTCTACTGTTATAGACGAAAATGATTGCGATTGTAAAATGAAAAATGCAAGTGGATGGATCCAGAAAACGACGTGTATTTCCTTCCATTTGCAAGTAATCTGAATAATAACAACCTTTTCAATACTTATAGTGGGTAGCTGAACTTGCTTGCAGTACTAGAGAAGCTCAAGTTACAGCATCTTGGGTTAGTTAGCGATCTGTTCCTTTCTCATATGTACAGAGCCACTACATTCTTGCAAGGGCACCTTGAAGCGAGTGGCTTCAAACTATCTTCATTTACTATGTCACATATGGTCACCTTCCTCTTCTTTTTTTCTTCTTTTTTTGAATTTTTTTGGCATCGTTCTTGATCGTGTCAGTAGATTGGTACCAGGCGTGTCTGAGAATGAATTGGCTGTGCAGGATCGGTATCTGAATAATCCTCCTCCTCTTCGCTGTCTGACGAAGTCATATACATTTCCCGTCTTTCCTGCAGGGTTAAGTGATCTGCTGGCGACGACGACGATGGAAGGTTGCCAATGCTCTCACCATGACCAAGATTGGAAATAGGATTCCGGCGGTCCTCAAGACAAGAAGCGAGAATAAGGCCAACGAGTACTCCCCATCCCCACCAATCATAAGAGGAAGAGTGTGGCGAAGAACCAGGAGTGACATGAAAATTATGGCGACTGTTCGGCAACACAGGGTGCTGCTTCTCGTCCTAATGGGTAAGTAGTCCTCATAACCATCCATGAAGTCGCGCTCCGATGGCACCATTGTTATTATCTGGGAATCATGGAGATCTTGCCTAGCAATCTCCCAATTTCCTCTGAAGTTCATCGGTATACTTCCATAGTGAAACAGTTGCTGTGGGGCAGTATAACCAGGCTTGAATTGCTGCAAACATATTTCGCAAACGGTGTCGCCTTTCTCATTGCACCAACGCTGAATGCATTTCCGGTGCGCATACTTGAGGCTGCCACAGCAAGCACAGGGTGCCTCCATGCTGGTATCCCAATCCTCCTCTTGGCAAATCCTGCACTCCACCATCTTCCTCGCCGAGCCGCCATCGCCGTCGCCGTCGCAGCAGTAGTCGATCGCCACCGTCTCCGCCTGCAGATCGGCCACCTGCTTCCTGATTGCCGCGTCCAGCGTCGACTCCGTCAGCAGCCGATCCACAAGCAATGCCAGATGGTCGCCCATTAATCCTTGTCCAGGTATCAACAGCAAAGCTCCAGAGAAGGTTGAAGCTTGGAAGGATGGATTTGGGGTTGGGGTTAAGGCAAGGGGGGGGGGGGGGGATTTTTGGGGGAGGGGTTAAGGGAAGCAAGAGATGGAGTGGAGGGGGATGTAACAATGGAGGCCAAGCCAAGGAAGAACACTCTAGCTCACCTCACCTTCAACTCCTCCTCCTTCTTCCCTCAAATTTAAATTAGAAGAGAGGCAAAGAAAGAGAGAGGGGAATAAGTATCACCAAACAACAACTTCACTGATACTGCTCTTTTGCATGTTTCTTTCTTTCTTTGGAATAGCCTCCTCTCCCTGATTCCTTCTCACTTTCCCAAAGGCTCTCTCCATTTTCTGGAGCTTTGTAGTAAAGGCTCTCCTTTTCTTTTCTAGTACATGGTGCTCAGAAATCAGTGGAGTTACTGTTTACTAACTATTACTATTAACTGCTTTGAGCTAGGAATTGAGTAGAGAAAAGATAATCTCT

Coding Potentia
Explanation CPC Score
noncoding -1.11917
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0001300.2 1 1187103 A T
Osa01LNT0001300.2 1 1187249 T G
Osa01LNT0001300.2 1 1187266 T C
Osa01LNT0001300.2 1 1188610 T C
Osa01LNT0001300.2 1 1189099 C A
Osa01LNT0001300.2 1 1189706 T C
Osa01LNT0001300.2 1 1189820 A G
Osa01LNT0001300.2 1 1189441 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
Osa01LNT0001300.2 osa-miR5337b Cleavage 3.5 19.867 1 21
Osa01LNT0001300.2 osa-miR166l-5p Translation 5.0 14.089 1 21
Osa01LNT0001300.2 osa-miR528-5p Cleavage 4.0 18.064 1 21
Osa01LNT0001300.2 osa-miR1850.1 Cleavage 4.5 19.297 1 21
Osa01LNT0001300.2 osa-miR2098-3p Cleavage 5.0 12.393 1 20
Osa01LNT0001300.2 osa-miR2106 Cleavage 5.0 16.692 1 21
Osa01LNT0001300.2 osa-miR3979-3p Cleavage 5.0 15.219 1 20
Osa01LNT0001300.2 osa-miR2863c Translation 4.5 12.553 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0001300.2 1 n+p1a Resistance or Tolerance Other soil stress tolerance C161 R753
Osa01LNT0001300.2 1 n+s1a Resistance or Tolerance Other soil stress tolerance C161 R753
Osa01LNT0001300.2 1 yd1a Morphological trait Seed R753 C161
Osa01LNT0001300.2 1 nan Physiological trait Source activity RG532 RG472
Osa01LNT0001300.2 1 nan Physiological trait Eating quality C161 R753
Osa01LNT0001300.2 1 nan Physiological trait Eating quality C161 R753
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