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

>Osa01LNT0011300.2

ACAGCAGCAAGCATTCGTGTTTATCATGTGCTATGCATGATAACATAGAATCCTAGCCACATAATGCGTAGGGTCGCTGTTAAGTCTTTACAAAAGGAAGCGTCTAGCTACAACCATGCTCAAAGGTCTATAGCGAGCGACAAAATAGCACAGTTTGTAAATGCATGGCACAATATTAACCAACGAAACACTGTAGAGTGGTTCTAAAGAAGCTTGGTTAAGGTACCCATGCAAGCAGAGCATGAGACCGATGCCGAGTCTGATACAACTGTGCAAAACAAAAGCGTACACATTCCTTTGCTGCATCAGGCCTTGTTCTCGCCGCTGCCATCAGCGGTATCGTCACCACTTTCTTTGAACAACTTCTTAGCTGTGCCAGTGCCAGGAGATGGCCTTGCCCTTTTGTTGTGGGACTTGGATGTGGTTTTCTTAGTAGCAGAATGACCACCCATTTGGGAAAGGGGCAAATTGTCATCATCCTCATCTTCTTCGTCAAGGACCTGAACTGGAGTCTTGGACTGGCATTCAACATCATCATTTTTGTCCTTGGCTCCAACAACCAACGGACTGTTTAATCCAGCCGATGGAGTGGCAGGCGGATCACTGAATCCAATGGATGGAGCAAATGCTGCTGTGGACTGGCCAACAGAGAGTTCATGTGTTACACTTGGTGATAGAGCTAGAGAAGGTACCATGGAGGATGCCTGAGATGCAGATGGAGATTGTGGGATGGCAGGATTCTGGCTGTTGCCGTTTCCGACAATCATATTCACTTGGAATGAGACATTGCCTGAAGACATGGTATTCTCGGTAATAGCAACTTTCCAGGTGAAATTTTCCTCAAGCAAATTTGTGATCTCCTTGGGTATGGCCTCCTTGCCGGCAGCGTTGCCCTCTAACAGAATCTCCACTGATCGACCAATAAGACGCTGTGCTAGGCGGCCAAAGAGCACGAACTTAGCGTCAGCTGTGTCATCACCTGCCACAACGCTAAGCTTGAACCTAGGTGATGCTCCCACAAGAGGAGGGCATGACTCATTCTGGCACTTGTATGTGTTTCCATATGGCCTTGCTGTTCTCCTGCATATATCACATGCAGTGTACCACCAAGAGTACTCCATGTCTATTTTCTTGATGACAACAGTAACCAAGAATTCATGTTTCTTGAATTCGAAAGGATTCAGATCCTTAATTTGGATAATCGTCTTGGGCTCAGCATTGCTATAAGCAGGTGCTGCAGGAGGTAGATCAGTCCACTCTATAGGACTATAGGTTGCTTGGATGCTGTTTCTCAGAGAGATGACCTCAGGTGTGTCTGCGTTAATGTATCACTTGCAGGCTGAGTTACCTGATAAAGAGACATCGCCATAGCCCTTCACAAGGGTGCCAACGAAGATTACTATCTGTGGTTCTTTCTGACCAGCAACAAACACCTCATCGACAGGAAAGCTTGTTGCACGTTCCCCCCAAAGCGCCACATTCAAGATTGCATTGTCAGTGTTGCGGATGAAGACACTCCTCTTTACGGTGCCTTGAAGCGGAGTCACGGGCGACAGCTGAGTAATAATTCCAATGATATCTGTGAATGAGTCTTTCTTGCCGACACGTGAGCGAAGACCGCCAAATGGTGAGAGTGAGTAAGTATACAAAGGAATCTCAGCTGGTGGATCGACACGCTCCTCTAGTTTAGTCCACCTTGTGAAATAGATGGACATGCAGTTGTCGACTGGTTTGTACTGCCTGTTACACTTCCTCACACGGAAGTACTTAATGTAGTACACCTTGCCTTCAGTGATGATTGGCCTGAATATCTCATCACATGGGGGATAAATCTGAGCAGCAATGCTAGTCCCCTTCTCATCAATCAGGACCAAGCCAAAGTGAAGAATCTTGTCATCATCCTTTTGGTCACAGAAAGCCCAAAATCGCGAAACCCGAACACAAATGCGCTCATTGTCGTCACCAAGGGAGAGATCAGAGAGCAGGGTGTGTCCCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.991655
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
Osa01LNT0011300.2 osa-miR5534a Cleavage 3.5 21.139 1 21
Osa01LNT0011300.2 osa-miR5534b Cleavage 4.0 21.139 1 21
Osa01LNT0011300.2 osa-miR168b Cleavage 3.5 16.944 1 21
Osa01LNT0011300.2 osa-miR169f.2 Translation 4.0 18.844 1 21
Osa01LNT0011300.2 osa-miR169p Cleavage 4.0 19.379 1 22
Osa01LNT0011300.2 osa-miR1855 Translation 4.0 17.908 1 21
Osa01LNT0011300.2 osa-miR1428e-3p Cleavage 5.0 12.767 1 21
Osa01LNT0011300.2 osa-miR1860-5p Translation 4.5 23.541 1 21
Osa01LNT0011300.2 osa-miR2104 Cleavage 4.5 14.192 1 22
Osa01LNT0011300.2 osa-miR5501 Cleavage 4.0 14.33 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0011300.2 1 An9 Morphological trait Panicle/flower nan nan
Osa01LNT0011300.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0011300.2 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0011300.2 1 nan Resistance or Tolerance Insect resistance RM576 RM3412
Osa01LNT0011300.2 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0011300.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0011300.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0011300.2 1 nan Physiological trait Source activity RG532 RM472
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