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

>Osa01LNT0026200.1

GTTGTTTACCGTTCTGTTATTGATTATAACGTCTGTCCTCAGTAATTCCGTTAATGCATTCAAGAGCTATATATAGCTTGCAGAAACTTATCTGGCACTATGGCTGAAATGAGAATACAGCTGTGCATAACAATAGAACGCTACGCAAGTGAAGAATACGGCTGTGCATAACAATAGAATGCAAGTGACGTGCTGAGTATCTTCTAACGAAATTGTAACGGAAAAGCTCTGGACCTTTTCTTTCTGTAGGAGGGCTATGCAAAGATTCATCATGCTTTCTACCTCAACCACCATCTTTGAACAGCTGAAATGGGTGTGTTGAGGAACGGTGCGTAGCGATGGATGTAGGGATTTACGGCCCGGCCTATTCTCGCCCATGCGCTCTGGTGATAGCCAGATGTTACGGGTGCATGGTACATCAGCTTCAATAGATGGAAGTACATGAAAGTCTGAATTATGTTGCGTCTCCACGAGAAAAGAGATACGATCATAAGGAAACCCAGAGTAATTTCAGCATTTGAACAAAGGAGGCTGAGTGTTGTGTTGTTTGTTTCTACCCACAGACAAGGCTCCTCCAAATATTGCCTGTACAAAGAGGAGCGTGCAAAGTTACGCCTTAGGAATCTAGCAACATGATCAAGTGCCCAGCAAAGCACAGGAAGAAGAGCAATTTTATAGTGCACATTAGATGTGAACATCATAAGGGAGAACATCAAATGAACAAAGTCCTTGGCTACAATTATAGATTGCAACCAAGGCTGAATTGCAGCCATGTTCCATGCTCTTGGTTTCCCATAGGTGACATAAAGAGAATATGCTGAGGAGCATATTGTTCCTAGTAATGAGAGTCTATAGGCTTTGCTTGCAATATGTTTTGGTAGAATTGGCAATATTCCAAGACTAGCAACTACCAGTACCCAGGCATTGATAGAGAAATGTATAGTCCGCCCATCCAACCATAAAGAATTTGCAGTCCTTTCCGTTTGTGATGGTTGGGAGGCAGCAGTTGATCTTGCACTTGATCCTGAGTCACGAGCTCTGACATTCTCATTGGATGGTGTTGCTGAAGACCTTGCTGCTGGTTTGGTGGATTGACTTGAACTTGTGGAAGACATTGGCTCAACAATCAAATCAGGATCGATGTACCGCTGGTAGAACTTGCGCTTGAAGTGGTCGACGACGTCGGGGCGGGAGGCGAGGTGAGGCGGCACGAGGACGTTGGACCAGTACCCCGCCCACCGCGAGTCGTTCTCGTAGTCGTACGCCGCGGCCCCGATCCGCTTCAGCCTCCCCCCTCGCTGCCGCTGGGGTACGGGACTCCTCCGGGTTCGTTCGAGAGAGTCGCGTC

Coding Potentia
Explanation CPC Score
noncoding -1.06392
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0026200.1 1 23815370 C A
Osa01LNT0026200.1 1 23815706 G A
Osa01LNT0026200.1 1 23815832 T C
Osa01LNT0026200.1 1 23815940 G A
Osa01LNT0026200.1 1 23816349 C T
Osa01LNT0026200.1 1 23817116 T C
Osa01LNT0026200.1 1 23817227 T C
Osa01LNT0026200.1 1 23817262 G A
Osa01LNT0026200.1 1 23817291 A G
Osa01LNT0026200.1 1 23817329 G A
Osa01LNT0026200.1 1 23817520 A T
Osa01LNT0026200.1 1 23818025 A G
Osa01LNT0026200.1 1 23818131 C A
Osa01LNT0026200.1 1 23818176 T C
Osa01LNT0026200.1 1 23818658 A G
Osa01LNT0026200.1 1 23819098 A C
Osa01LNT0026200.1 1 23815737 C T
Osa01LNT0026200.1 1 23815400 A T
Osa01LNT0026200.1 1 23815812 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
Osa01LNT0026200.1 osa-miR156j-3p Cleavage 4.5 18.441 1 22
Osa01LNT0026200.1 osa-miR398a Translation 4.5 17.265 1 21
Osa01LNT0026200.1 osa-miR1442 Translation 5.0 16.085 1 20
Osa01LNT0026200.1 osa-miR1847.1 Translation 3.5 18.504 1 21
Osa01LNT0026200.1 osa-miR2920 Cleavage 5.0 17.097 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0026200.1 1 nan Morphological trait Panicle/flower CDO920 RZ776
Osa01LNT0026200.1 1 nan Resistance or Tolerance Drought tolerance BCD134 RZ776
Osa01LNT0026200.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0026200.1 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
Osa01LNT0026200.1 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
Osa01LNT0026200.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0026200.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0026200.1 1 nan Resistance or Tolerance Drought tolerance RM129 RM5
Osa01LNT0026200.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0026200.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0026200.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0026200.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
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