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

>Osa01LNT0017200.1

CACCGTGTTTGATCAGCCATTTCAGTCTCGTTAAAAGGGAAAAAAAGAAGAGGAAGAGTCCAGATCACGCGAGATATTTAACTAATTGCCACTCTTACAAATGACAATTTAGGATTTGTTACTGGATCTACATGTCATAGACACATAAGAGCCGTTACGTCATTGACTGTGAGTGGCAATGTGCTATTTACCAAATCTACAAAAATTTGAGACCAAGAAGTCCAGTTAAATACAGTGAGCCATGGGAAGAACATACCCAAGATGCTTCCTATCTGTTGGCTTCAACAAGAATGTTTAGGTCCACTTGTTTGTATAATACTTCTGTCACTCCAGAGTCCAGTTGCGGCATTGACAATGAACTAGTGCAAGTGAAGCCATGTAATCACCGGACCTTGATCCATATGGTGACCTGCATGCAGCAACAATGTGGGACTTTGCCAACTCTGCATCCTTCTGAGATTCATAGTAAAGTCCAGTGTATAATGATGAATAGAAAATTTCACCTTCAGAACCACTAGAGAAATTTGAAGCCAACTTTTCAGGGTCCCCACCATCTTTGAACAGTGCATAAGCTTCTCGCATTACAGACCTTGAGTCTAAACCAACCTCCAGGAAGCGCTTCCTTGCTTCGTCTACCCCATACAGCTGAGCTTCACAGAGAAAGCACCATATCGACTCCTCAGTGTCATTCGGGTTGGCAGCAACATCCAGCCTGAACTGTTCTGCACCTTCTTCGAACCTGTCCAGGTAGTAGAGTGAAAGCCCCCTTTGCCAGAGATATTTCTTCTGCCGCTGATCGAGCTCAATTGCCCGATCGAACTCTGCTACTGAGCCAGCTACATCTCCCTGCCTGAAGAGCTGCATGCCTCCCCGGACGGCGAGCGACGCGGCAGCCGCGCCGCCTGCTCCGCCACCGGAAAGGAAGTCCCAAATGCCGGCAGCCACCGGGAAGAGGAGCCGGCGAGGCACCGCGGGCGTGGCCGCCGGCGGAAGTGGCGAGGAGAGGAGCTTGGGGCCCACCGGCTGCGCCGAGCCGACGCGGCCGCGGGCTCCGGCTGCCGTGGGGAAGGGGAAGGACGCCGGAGAACGGACTGACATGGAAGTGGATGACATTTTGGAGGGAAGCGAACTCCGTTTACCAAATGCCCAATTGGGATAGGAAAAAGAAAAAAGGGAAATACGCTTTTC

Coding Potentia
Explanation CPC Score
noncoding -1.02576
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0017200.1 1 13582118 G A
Osa01LNT0017200.1 1 13582195 A G
Osa01LNT0017200.1 1 13582231 A G
Osa01LNT0017200.1 1 13582544 C A
Osa01LNT0017200.1 1 13582793 A C
Osa01LNT0017200.1 1 13582949 T A
Osa01LNT0017200.1 1 13583132 T C
Osa01LNT0017200.1 1 13583402 T A
Osa01LNT0017200.1 1 13583424 A G
Osa01LNT0017200.1 1 13583492 T C
Osa01LNT0017200.1 1 13584068 T C
Osa01LNT0017200.1 1 13583695 G A
Osa01LNT0017200.1 1 13584434 G A
Osa01LNT0017200.1 1 13584532 A G
Osa01LNT0017200.1 1 13584764 G A
Osa01LNT0017200.1 1 13584821 A G
Osa01LNT0017200.1 1 13582219 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0017200.1 osa-miR5820 Translation 4.0 21.135 1 21
Osa01LNT0017200.1 osa-miR2275a Cleavage 4.5 14.911 1 22
Osa01LNT0017200.1 osa-miR2275b Cleavage 4.5 14.911 1 22
Osa01LNT0017200.1 osa-miR5508 Cleavage 5.0 10.63 1 21
Osa01LNT0017200.1 osa-miR2275d Cleavage 5.0 14.911 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0017200.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0017200.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0017200.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0017200.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0017200.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0017200.1 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