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

>Osa01LNT0019100.2

GTCTTTGCGGCGCCTCTCCAGTCTCCCCCTCCCCTCCCCTCTCCCGACGACCCGACCGGCGACGCCGCTCCTCCTCCGCCGCCCCTCTCCGCCGCTCCCCCTCCCCCTCCCCCGGCGGGGCGCGGCCGTTCAAGTCCAACCTCGGCCACATGCTCCGCCTCCGCCTCGCCTTCGAGACCTTCCTCATGAGTAGGCTCCTCCACTTCACCACCGTCCACAGTCTCGTTCCCGCTCCACGCGCGCGCCGCCGAGTAGGCTTATGAACTAAATGACGAGGTGAATGCACGGATAAGCCCTGCAGATCACCATGTTTGTACAATTTATAGTTGGACTAAGAGAGTATTCTGGTAATTAACTTCTGGGGCAAGTAATCTGCCCTGCAGATCATCGTATTGTTGGAATTTTTTTTTTGGGGGGCTTACCAGGTTCTCAGGGTGAAGTGCTTTATGAGCTTCTTCGAGGAATGGGAGGTCAGAAAGGTGAATAGCAATCCTATCGTTTTGATTCTATGTGATCACTCCACATACACATTTAACTTAATTCACACTATATATTCTCACCGATATTGTTTTTCTGGTTGCTCCTGGATGCTCATATTACGTATTCCTTACCGATATAGCTTTCATGATGGTCCATTTTATACTAATTTAGCATTTCAGTTTTATTACATACAAATAAACGAGCCTTCTATTTTGCAGATTAATAGGGGAAACATAAAATACACCTCTTCCTGCTTTGCCACACGTATAGAACTACAAGTATGCATATCTATGTGCATGTGTCAATTTTGTGCTGCCTACAAAATCCAGTCTAGAAGTTGAAGGCTTACTCTACGTGCCCCATACACTAAAATGATTCATTTTATATGTTAACAAATTGGTCTGTGCAGCTCCATGAAGACAAACCATAGAAATTTAGCAATAAAATCATATTTCATGTCCATGGTCTCTTCTAGCATGCATGGTAATATTTTTTTTTCTTGATAAACTATTGTTGTGTTATTACTTACTGAATTCTGAAATCAAGGCTTCATGCATATGGTAGCAAGCTGTATATGGTGTTATTTTGAACAAAATATGATTTTATTTACTTGATTGCTGAAAATACATTGCAGAGATATTAGGCAAGTCAGGCAACGTAACCCTCCTGTCTAATGTAGTATTCTGTTTCTACCAAATCATGCATCCGCAGGGCGTTTGCCAACTTTACTGTACGCTCTTTGTTTTATCATGCTTTCGGTTCACGTGTCCTTTGGTGAGTCTTTCCTACATATTTTAGCCCTTTGGTAATTTGCACCTTTAGATTACTAGCTACCTATACATGTTTTAGTACTGTATTATGATACGACATGTAGATTCATTCTACAAATACCCTAAAATATTTTTTCCTCCTGAACAGATTGTCAGGTGTATTGTGAATGGCAGTTTATTTCCGAACAGAGAAATCATGTTTCCTCAGGTTAAAAGAAAAAAAAAAGAGAACATGTTTCTGGAAGTTCATTTTATTTGATTATCACCAACTCTTCACACTGTTAAATTCTTTGACTCCAATCATAGATATAATATCTGAACTGGATACTCTATGTATTGTCTATTATTGTGCATGTATTCCTCATACTAAAAGTTTTTATCATTTCACAATTCCTATTATCTAATGAATTCCTACTATTCACCATATCATTTTTAAATTATTACACCATGTAATCCTTGCTATTGAAGTTACTGAAGTACATGTCCTTTTGCAGAGGAATTTGACATTGGCATCATGCCAAGCCCTGTTGCTGTTTTCCGTCCTATGTCCTGTCCTGAGGTTGTAGAATGATAGTCGAGATACATGAGGATATCTCAAGATTTACTGACTAAACTTAAATAACTTTTTCGCACTTCAGAAATGGTATATTACTTCATAGTATAAATTTTTATACAAAGATTTGTGTCTCGATATGTAATTTTCTTTTGGTACTTAAACAAAATATTATTGCCATGG

Coding Potentia
Explanation CPC Score
noncoding -1.1737
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0019100.2 osa-miR5795 Cleavage 4.0 19.294 1 22
Osa01LNT0019100.2 osa-miR5825 Cleavage 4.5 17.49 1 24
Osa01LNT0019100.2 osa-miR7694-3p Cleavage 5.0 13.246 1 22
Osa01LNT0019100.2 osa-miR399a Cleavage 4.0 9.568 1 21
Osa01LNT0019100.2 osa-miR399b Cleavage 4.0 9.568 1 21
Osa01LNT0019100.2 osa-miR399c Cleavage 4.0 9.568 1 21
Osa01LNT0019100.2 osa-miR399d Cleavage 4.5 9.568 1 21
Osa01LNT0019100.2 osa-miR399e Cleavage 5.0 9.568 1 21
Osa01LNT0019100.2 osa-miR399f Cleavage 5.0 9.568 1 21
Osa01LNT0019100.2 osa-miR399g Cleavage 5.0 9.568 1 21
Osa01LNT0019100.2 osa-miR399h Cleavage 5.0 9.568 1 21
Osa01LNT0019100.2 osa-miR399j Cleavage 4.5 9.568 1 21
Osa01LNT0019100.2 osa-miR399k Cleavage 4.5 9.568 1 21
Osa01LNT0019100.2 osa-miR159a.2 Cleavage 4.0 19.953 1 21
Osa01LNT0019100.2 osa-miR1429-3p Cleavage 5.0 14.668 1 21
Osa01LNT0019100.2 osa-miR1848 Cleavage 2.5 17.006 1 21
Osa01LNT0019100.2 osa-miR1428b Cleavage 5.0 13.986 1 21
Osa01LNT0019100.2 osa-miR1428b Cleavage 5.0 14.489 1 21
Osa01LNT0019100.2 osa-miR1428c Cleavage 5.0 13.986 1 21
Osa01LNT0019100.2 osa-miR1428c Cleavage 5.0 14.489 1 21
Osa01LNT0019100.2 osa-miR1428d Cleavage 5.0 13.986 1 21
Osa01LNT0019100.2 osa-miR1428d Cleavage 5.0 14.489 1 21
Osa01LNT0019100.2 osa-miR2880 Translation 4.5 12.355 1 24
Osa01LNT0019100.2 osa-miR5152-5p Translation 5.0 18.176 1 21
Osa01LNT0019100.2 osa-miR5156 Translation 5.0 12.687 1 24
Osa01LNT0019100.2 osa-miR2875 Translation 5.0 11.506 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0019100.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0019100.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0019100.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0019100.2 1 nan Morphological trait Root RM23 RM306
Osa01LNT0019100.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0019100.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0019100.2 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