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

>Osa01LNT0024600.1

TTGGTTAATGAAAAGGCTTAAACTTTTTGCAAGCCCTTTTCCTTGTGCTTGGCGAAAGCGTTTGTTGATAGATGATATATAATCGATCTCTAGCTCGGAAATAAAGCACGTAGGCTGGACATGCAATGCATACATGATCATCAAACTGATCAGAACTAAATTATGACGACAAGGAGAAGAAGAAGAAAAAGGAGAAGAGAAAAAAAAAAAGCTAGCTAATAGGGTCCATGGCATGCATGATGATTCCATCGATATGATCGTAGCTAGTTAATCACCATGCCTAACAATGATGAATCTATCATATGATGGTCTCACATTGGACAACACATTGCAACAGTTGCTTTGCATGCATGCCGCCATGCGCCTTCATGGCTTCCATGTCGTCGTCGTCGTCGTCGTCGTCTCCAATCTATCTAGCTAAATTGATTAGATCAGCTGCTCGACTCCTCCTCCTCCGCATCCTAGGGTTTCCGGGAAGGCGAAGGCTGGCATGGCGGCGTTGCTGTTGTTGTAGGTTGGTGAACTGGATGTCGCCATGGTGGTGGCGGCGGCGGTGTTGATGGACATGGCGGCGTTCGGGTAGTTCCGGCGGTCTAGGGTTTGCAGCTCCCTGATCTGGGACTTGAGGAAGCGGAGGTAGTTGGCGGCCTCGTCGAGCATGGAGGCCGTGTCCATCTTGGCGCCGCCGGGGACGAGCTTCTGCAGGACGCGCAGGCGCTCGCTGATGCGCTCCCGCCGCTGCCGCGCCGCCACCGTCTGCGGGTCGGAGGAGATGCGCACGTTGCGGCGGCGGGGGCGCTCGCCGGCGTCCTCGGCGCCGAGGGTCACGGGGCGCATCGCCGCCGCGCGGTAGATCATCTCCTTCACCTGCGCCAGCGCCTCCGTGTCGGGCTCGTACAGTGGGTCGTCGCCGCCGCCGCCGCCGCAGTTGCCGCCGGGGCCCCTGCCGTCGAAGCTGATGCTCGACGAGCTGCTGCTCAGCGACGGCTTCGCCCGCTTCGACGCCGGGGCGCTCGTGCTGAACGCGATCTGGATGCCGCCGTCGGCGCCGGCGGTGTTCGACGCCAGGAGGCTGCAGAGAGGGTTGTCCTGCGACGACATGTCCGCCGCGGCGGCGGCGGCGGTTGGCTCGGCGGCCTTCCGCTTTCTTCCCGGCCGGCGTTGCTTACGTCCACATCCGCCGCCGCCGCCGCCTCCTCTGACTCGTTCGCACTGGCTGGTCGTTGCAGTGGCAGTAGTCATCGCCACCGTGGCGCTCACCGCGTCGACGACGTCGTCGTTGCCGATGCCGGAGAAGACCGTCGCGTCCATGGCGCCGCCGCCGTCAACGGAGGCGGCTGCGGTCGCGAACGCAGGTGGTGGTGGTGGTGGTGGTACAGCGCTCAACGTGACAGCCGGTGTTGCTGGTGCGACGTCGTACTCGGCAGCCATCCCCATCGCGCCCTGGTGGCGATGGTGATGCTGCCGCTGTCGCTGCAGGACATCCGCGTCAACGTCAGCGTAGGCAGGCGTCCCCGTCGCCATCGCCGCGAAGGCGACCGCCGCCTCGACGCCGCCGTCACCGGCCGTCGGCGGCGGCACCACCGCCACCTTGCCGCCGCCCCCGCCGCACCCCGGCGCCTGGATGCCCTGCAGCTCGAGTATCGCCGCCGCCAGGGCCTCGTCGAGCACCAGCCTCTCCAGCATCGTCATGCCGCTCCCGTCCACCGCATTGACACCACCCACCTCCGGCGGCAGCACCACCGCCCCACCATCTCCATCTCCGCCGCCGCCGCCGCCATTCCACACGCTCTCGCTCAAGATCATCTCGTTGAAGCCACGATCCATCCACACCGTCGTCGTCGTAGCTAACCTCTCGTTACTCTTTAGTTGGGTTGATCGATGGATCGAGCTGGTGAGAGTGGTAGCACTACTTACTCACTGGCTCACTGCAACAGCTGATCTAAACATGTGGGCTAGCTGTTGATTCTATGGGAGTTATGCACAGCTAGGTTGGAGGAGCAGAGATCATCATATGGGCTATGAAATGAATTGCAGCAACAGAAAGAGCATTCACGCAATAAACGCTCGAGGCAGCACAGCAGCAAGAGGAGGGAGGGGCCTGCAGGCTGCAGTAGTAGCTAGCTGCTGCTGGTAATG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.190001
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0024600.1 1 21687603 A G
Osa01LNT0024600.1 1 21687773 T G
Osa01LNT0024600.1 1 21688364 T G
Osa01LNT0024600.1 1 21689058 C T
Osa01LNT0024600.1 1 21689538 T G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0024600.1 osa-miR818f Translation 4.5 11.118 1 21
Osa01LNT0024600.1 osa-miR2867-3p Cleavage 4.0 11.275 1 20
Osa01LNT0024600.1 osa-miR5160 Translation 5.0 15.402 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0024600.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0024600.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0024600.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0024600.1 1 nan Resistance or Tolerance Drought tolerance RM129 RM5
Osa01LNT0024600.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0024600.1 1 qNVB-1-1 Morphological trait Culm/leaf R2159 C178
Osa01LNT0024600.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0024600.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0024600.1 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