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

>Osa01LNT0020700.1

GAACGCAAGAATAGGATATTCCATTAGCAATAAAGGCACCGATAAGTTACAAATAAAGAATAATCGGACTATCATACTCAACTCGCGAGAGGCAAGCTGCAGTTAGTTCATGCACCTACAAGAGAAAAATGGAGACATACTCTATTCACTCGCTTCACATTTTCCTTTCCCCAATACTACTTACAACACGGCGGCTAGTTCCTCACATAATAAATTAAAATGCAACCTAAAATTATCCGAATCGCCTAAAATCGAGAGAGAGAAAAATTGTAACACAAAGAGCGCTCACAATTGAAAAAGAAGGTGAGTTTGCGGGAGCTACAATGGTGGCTGATTGCAAGTGATATCATAGAACCTTGACGCCACTTGGTCGTTTACCTTCCATGGCATCCTTCTTGTCGCGGCAATCGGAACAAAGGAAAGGGCCTTCCCATGGCTTAGAGGAGCTGGAAGAGAAGATTGAACCAGCATGGACTGATATACCTTCACTTGGTTCAAGGTCCACCTGGCAGATGGCACATGTAAACAAGCTTGATGATGTTCTCCGACCACTTGAGTCATTGCCTAACCTCTCTGATAGCATTGCTGAACCTTCTTCGAATAACTCTTCCACCATACCCGCTGCTGACAGCTGCTTAGTCAGTTTATTAGGATGGTCTTTTGTCTTTTTTCTAAAGATTAAAGACTTCAACTTGTTTATCTTTTTTGGTGGAGATGGATGACGTATTGTTTGATCAGGTGGGATCATGTCAACAACGATGCAGGTCGTATCATCTTTTAGCCCTCTTGTCCTGAGCGCCTCCTTAACAACTTGCTTAGCAGCAAGCTCAGCAGGCAAACCTCTGCAACACTTTGCAGCTGCCTCTGATGACAAGGCATCCCAAATGCCATCTGATGCAATAATAAGCCTCCCTCCAGCATTCGACAACTTCACTTGCTTGACATAGGGAACAGGAACTATAAATTCTCCAACATCGATATCTCCAATGGATCTTGATAGACATAAACCTCCTGGCCAGCATCTCAGTGGACCAATCTCTGCCCCACCAACAACACTAAGCCTTCCAACTTCACCTCCACTCGCAGTGACACGTTCCCTCTCCTCCACATTTTCTTCTAGTCTGTGATCCACAGTAAGCAAAGAAACAGCGCCACCCTGAGCATCCAAAATACACCGGGAATCACCAACGGAAGCAACGGTGATAGTCCATCCGTCAATGATCACGAATGTGGCAGTTGTGCCAGATGTTTGGCCTTTGTGTTGGAATTCTTTGTCAGTCTTAACAAACCCTGCGACAAGCGCACGTGGGAGCGCATGCAACCACTCCTCCCTGGAGAGTCCTCTTGGCATTGCGCTAAGGACATGATTGAGCAGATTGTCCCTGGTGTATATTGCGGCGGCATTACCATTATGGCCATCAAGAACGGCGAAGACGGCGAAGGTGTGGGGAGGCGAGGACGCCAAGGAGGAGGAGGACGACGACGAGGTGGAGGGCCGGGCGCAGTCGGTCCTGAGGAGGAAGAAGTCTTCCCCCTTCTTCGACTGCGCCGCGCACCCGTACCGCAGCAGCGGCCTCCGCCACCGCCGCCCCCCCTCGGCGCCGCCGCCGCCGCCGCCGTCCTCCTCGTCGCGCGCGCAGATCCTGCTCCCGCTGCCCATCGGCCGCTCCGCGCGGGCCTCCTCCTTGATGAGCGCGGCGAGCGGCACGAGCCCGCTCCCCCCCGCGGCGCCCGCATGCTGGCGCCGTTGGTGGTGGTGGTGGTGCGCCGCCGCCGCCTCCGATGACGGCGACGGCGACGACATTACCCCGCTTCCCCCGATCGGATCGAGGCGGAGGGGAGGGCGCAGGGCAGGGGGCGGGGCGGGGCCGAAGGGGCGGACAGGCACGCGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.528665
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0020700.1 1 18089486 T C
Osa01LNT0020700.1 1 18095037 G C
Osa01LNT0020700.1 1 18088532 T A
Osa01LNT0020700.1 1 18089281 G A
Osa01LNT0020700.1 1 18089635 A G
Osa01LNT0020700.1 1 18091082 G A
Osa01LNT0020700.1 1 18091504 A G
Osa01LNT0020700.1 1 18091514 A T
Osa01LNT0020700.1 1 18091664 A G
Osa01LNT0020700.1 1 18091984 A G
Osa01LNT0020700.1 1 18093010 G T
Osa01LNT0020700.1 1 18093099 A G
Osa01LNT0020700.1 1 18093238 T G
Osa01LNT0020700.1 1 18094919 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0020700.1 osa-miR5833 Translation 5.0 18.575 1 21
Osa01LNT0020700.1 osa-miR171f-5p Cleavage 4.0 19.564 1 21
Osa01LNT0020700.1 osa-miR1429-3p Cleavage 4.0 23.145 1 21
Osa01LNT0020700.1 osa-miR395v Cleavage 5.0 20.46 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0020700.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0020700.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0020700.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0020700.1 1 qNVB-1-1 Morphological trait Culm/leaf R2159 C178
Osa01LNT0020700.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0020700.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0020700.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0020700.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
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