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

>Osa02LNT0191300.1

GTGACAACTGAACCAAATTTATATCTGAATAGTATATTTGCAAGTTTGAGGTATATAAACAATGTATTCATCCCCTCGCCGAAACCAATGAACACTTTCTACTTCTGTAACACCGACTACAGAAAAGTATGCCATGACGAACACAAAATTAATAACTAATCAATTATTTCTAGAATGTGATACAAATGATTCGGTATATTTGTATGATGTTATGCTCTTACTATTGAATGTCTAACTTGCCTATGGAAAATTTCTACCAGGTGCCACTACTTAAGAAGATTCAGAAGACTGTCTTGGGAGATATTATCTCAAAATCAACCGCGAACAAGATCTTGAGGGAGCACCCAGAAATTATCTCAAAACTGTAGCAGCTCTGCATGCGTCTCTCTGCTTGGTAGCTGCTTGTCTTGGTGTTGGTGGACTATTCATCATCAGAGATCTCTGCACTTCCTGCCACCCACTTCCAAACACCCCCAGATTTCTGTCTTTGAGCAGTTGTCATGGTTTGCTCCACCTGAGATATTTGTTGCCGCAACACTTCTAGTTCATTCTCCAAAGAATCAGTAGATTCCAGTCTTTTATGAGCAGCAGCAATTTGGGACTCCAGTTTCTGGCACCTAGAACCCTCTGCTGCTAACTGATGTTGAACTGATTTAAGCTCCTTTGTCAATTCACCATGCGATAACTTTACCATATCTAGTCTATCCTTTAGTTTTGAGTTTTCATCACGAACTTCTGCCAGTCTGGACTCTAGCTTGCCTTTCTCTCCATTAAGTGCATCAAGTTCAGTAGTAATTTGTTTGGAAGAACCTGAAGGCTGAACTCTCTTCACATCTAAATCATCCGTTGCAACAATGTCTCTGGTTTTCTCATCAGTTATTACAGCATAGGCAGCTGTCACAGAAGCAGCTGCGGCGGCAGCAGCTGGTGATTGGAGCAGACGAGGTTGCACTAAATTCCTTGGCTTAAGTTTCATAACAAATATCTCATTATTGTATTGTCCATTGTAACCACCAAAGGCAACCAGAAACTTTTCGCCATCAACTGTGGTTGAGCAAAGAGTGAGACCCTCACAAGCAAGCGGATCTCGGGCTGGCACACTGGTGACTACAGACCAAACGAACTTGGAAGCATTCATCATAATTGTATCAGTAGAACCACTTGCGTTATCTCCGCCACCAACTATGTACCAATTTTCATCAATCATGGTACCAGCATGACCACTCCTAGGATTTATGTGCGCGCCTTGAGTGTCAGGTTGAGACCACTCCATCTGTAAGCATTAAGCTTCACTTAATCAAGAATGAATAGAAAACAATGTTCATAGGAGTATTAGTCAAATCATAACTTGGGTTGATATAAGGGGAGGAAATAAAATTCTCCTTCATTCAGAAGCACAACATGATTTGTTTTATGTACCTATTGCCAGCTTATGATATACGGTAGTTGCTGTTAAGTTTTCGCCATAACAGACTGAAGTTGGATCTTAGTCATTGCATACAACCACCCAGAAATTCAACCTTAGTTTCCATTAACTGGATACAGTTTGAAACTTGAAAGGCCTACTAGAACCTAGAACTACCAGTGCGGGGGGTTTGGAGATCTTCAATAGGCAATCAATGAATAAATATCAAGACAACTGAGTAACTTTTTGCCTTTGAAACTTATGGTATGTGACTCAATGCACAAATCCATCTGTATGGCAAGATACATGGAGAGTATATAACACTTACAGTTTGCAAGTCAAGAAGGTAGATATCACTAAAGCATGTAGAGTGAGAGGAACCGCCAAAGATCAAAAGATACTGATCAGCATAAACAGCAGCTGAATGATCATACCTAGGAGCTGGACCACCTTTCCCTGTTTTAACTTCTTCCCACATCATTGTCTCCAGGTCAAGTATATGAAGGTCGTTCAGAAGTCGCCTCTTGTTATCCTCTCCACCAAACATTATCAGTCGAGAACCAACCAGGGATACAGATTGACCACCACGAGATATTGGAACTTTTCCATATGTATCAACAGAAGACCAGCTATTTGTTTCCACATTAATAAGCCAAACTGAAACCTTGTTTGATGTTGATGTTCTGGTGTTCCCAGCTACAACCACAATATATTTTTTCCAGTTGACCAGACTGTGGCCTGCTAGTGCAGGGAATGAAGGGTCTGTGGTATTATTTTCGATATTCAACTGACTTGAATCTCTAGCAGCACTTAATGCTGACCACTTGAGTGTCCTAAAATCAAAGACCTGGATATCTGATAGATAGCGGCCATTACGACTCCCACCAACCACATAGAGTTTTTCACGAACCACTTCCGCAGCATGCTTGTAACGCGCGGATGGGCGCGGGGATCCCCCGGCGGGGCTGAATGGGAGCCACTGGTCGTACGGCGCCGCCGCGAGGTCGCCGGCGTCGCCGTTGATCCCCTCCCCCATTTCCGCCTCGAATCTGCAGGGGATCGATGTGGATTGGAGGACGGGGATGGGCCGGGGTTTGGGGATCTGCGCGGTGGAAGCTTCCTCCGCGGATTGGATGGATTCCTCCCAGAATTTTGACTCGGAAAATTGGATCTGAGGCCGCGGCTCGGATTTCCAAGCGAGCGCGGATCACTGGAGTGGACTCCTCG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.449636
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0191300.1 2 35326093 T C
Osa02LNT0191300.1 2 35326104 T C
Osa02LNT0191300.1 2 35326359 A G
Osa02LNT0191300.1 2 35326383 T C
Osa02LNT0191300.1 2 35327154 C A
Osa02LNT0191300.1 2 35327834 A G
Osa02LNT0191300.1 2 35327873 A T
Osa02LNT0191300.1 2 35327874 A T
Osa02LNT0191300.1 2 35328482 A G
Osa02LNT0191300.1 2 35328949 A G
Osa02LNT0191300.1 2 35329620 A G
Osa02LNT0191300.1 2 35331009 G A
Osa02LNT0191300.1 2 35331058 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0191300.1 osa-miR5823 Translation 3.5 21.001 1 24
Osa02LNT0191300.1 osa-miR7692-5p Translation 5.0 20.929 1 24
Osa02LNT0191300.1 osa-miR7694-3p Cleavage 4.5 17.903 1 22
Osa02LNT0191300.1 osa-miR159a.1 Cleavage 5.0 15.838 1 21
Osa02LNT0191300.1 osa-miR159b Cleavage 5.0 15.838 1 21
Osa02LNT0191300.1 osa-miR1428b Cleavage 5.0 24.032 1 21
Osa02LNT0191300.1 osa-miR1428c Cleavage 5.0 24.032 1 21
Osa02LNT0191300.1 osa-miR1428d Cleavage 5.0 24.032 1 21
Osa02LNT0191300.1 osa-miR1428e-3p Cleavage 5.0 24.032 1 21
Osa02LNT0191300.1 osa-miR1861g Cleavage 5.0 15.372 1 22
Osa02LNT0191300.1 osa-miR1882a Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR1882b Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR1882c Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR1882d Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR1882e-5p Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR1882f Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR1882g Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR1882h Cleavage 5.0 16.983 1 24
Osa02LNT0191300.1 osa-miR2104 Cleavage 4.0 11.192 1 22
Osa02LNT0191300.1 osa-miR2922 Cleavage 4.5 17.903 1 20
Osa02LNT0191300.1 osa-miR5151 Cleavage 4.0 13.935 1 22
Osa02LNT0191300.1 osa-miR5151 Cleavage 4.0 12.343 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0191300.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0191300.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0191300.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0191300.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191300.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0191300.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191300.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191300.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0191300.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0191300.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
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