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

>Osa02LNT0165300.1

TGGTGTCTGAAATCAATGTCAACTTGCAATTACATTGGTATTAGAATTAGGCAAAATTAACTAATGTATGGAGAGCTCCCGTGTTTGGCCATGGCCAGGACACCATAAAAACAAAAGGTAAATCTTTGCTCTATTATCCTTCCAATCGTGCCAATATCATTCAGCAAGGCATCACCTATCATACAATTCGATAGAACATATACCGGTGTTACCACACTAATATATTGAGGATAGTATCAATGGAGAAAAGGGAAAGATGCAAGTGCAGTGACTGATTCCGTAAAGATGGGTAAGGTAAGGTATATATAAACAGAGAAGATGTTGACCTAGTGAATAAAGCACCAATTATTAGTGCAGTCAACAGGAGAGAAATAACTCAACAAATAAATGAATTAATCAGTGACTAAATATAGCAGTTTCTTTGTGTAAGTCAAAACTAAAACCTATGGATATGCTATATAACTTATCTATACAAAGATTAAATCATATGTAATCATGTAAGGACTTCACTTGTCAAATGTCAATGCTTAGCTAAGTTAATGTGGCATAAAGATGTAACCACCATTTGAGAGCATGAATACAACACAATAGAACTTGATTACACATGCTATTTGGGAGCTTTGCTCAACAACTGATTACTACCAAACGGTTAAATTCTTTATTTGTACTGTAGTTTGGAATAAACTAATATTAATATGAATATATAATATGGACATGTAACTTTATAAAGGGTCGAAAAAATATGTTTCAGGTTATAACAAAATCCTGAAATGCAATAAAGGTAACTGAGTTTTAGTCAAGCAAATATTTAGAGTGAATTTATTTTATTTGAACACTACAATAAAAAATGTGTGTGGTAAGAAATATCTACAACTACTGCTTCAATTGGTTGTGACCAAAGCACTGATGAAGATGAATTCAGACTTTATGAATTATTGCATGTAAAGGAATTAAGACCCTATTTTATATAACGTATTTGAAGAATACGGTACATGCAAATTGCGGGTTTAAGTAAGTATGTTCTCTGAAGTGATGTACCAGTTGTAAGCCTTAGTTCTGGCAATTCACTGTTAACTGATCTTGTCAAGTAACAACAACTTTATAGCTAAGTTAATGACCATGTAGGTAAGCCTAATTACCCACAAGCCATGTCTAACTGTACTAATGCCTATCTTTTTACTATTTAGGTCAAATGAAACACACCAATTTTGGACATTTGTTATGAGTCCACATTTTTCCTACCAGCAGGAAAGAATGATGAAATGACTGTTGTTGTTTCATACAGATGCTGTAAAAAAAGAGTAAGAAACTATAACCAGAAATGTGATAAATTGACATTAAAGAATGCTAAGTATAACCAGAAGAACATGAGAACCTGACACTGTTAGATTTGTGCTGCAGCAGAACTTGCTTCAGCAACTGATACTTGTTGAATACATCAATGAGGCTTGACAAAAAGAAATTGCAGTTAGGAGCAACTGCAGAGAAAAAGCATTGCAGTCAACCTAAAACTTAGTGCCACTGATTGGGATACCACAGTTATAGCGCGCTCATTGGCAATGCTCTGGCCAATATGAAATGAAGATGTAATTATGAGAAATCAGTTCTGATAAATTGAAAATTACTTTGTCAAATCCTAAATCATTGTACATTGCTCCGGAAGAAGAATGCACTTCTATGAACAGTTGCTGAAGGCGCTTGTTTGAATGAAACATTGTGTTGAATCCTCTCAAAAGTGAAAATTTTTCTCTATTGTGTTAATGTAAGATAATAATTGACCTAAGAAAAATGGTTAACTTAAATTAATAAGCAACAGACTAACTGAGCTTTCAACGCATTATCTCCATCATGGATTAATGATAAATAGTTCATTTAAATGTGCCCATCTTGTAGAGAAAAAGGATGGGCAAACAATCTTGTTATGAATAAGGACAAACCAAGGACAGTAATGAGCATATACAAAGAAAAGCAATTAGAAAATCTATTATCTTCTACACTGCTATTGGGAAGCAAAATTCAATGTATATAGTTTAGAGTTTACTTAACTTTGTGCAGAATTGGCTACTTGTGTAGATCATGTGCTCGAGAAGATGGCGTTCTGAGTCTGTCTGCATCCTATTTTCTCTGATTACCAGAGCAGTTACCATACCAGAAAAGGCAAGGCAGTAATGTATTCAGCAGTTACAGCTATGGTCCTCTCGCATAATAGCAGCCATGGCTGTTGCTTCACCTTAGATTGTGAGGCTAGGTCCCCGTGCCGTGATGCAGACCCTGGTTGTGGCTATTGGTCAAAGATGCGAGGATAGCGTCTAGGAAGGTACCTAAGGGTGGAGGAGGTGAGGATTACCATGGTCACCAATGGAAGAAACGATTTCTAGTGAGGAGGGAGGGGAAAATCATATCAGCGGCACACCATATTGTGGATTTTGGAGGAGGCGAAGGCTAGATGAGAGAGGTCGGACGGAAATAGGGATTGGAGCGATGGGATCGGAGGTAATCTAGAAGGCTTTCATTGGATCACCTTCGCAGATAAAGTGGAGGCCCTAGGGCCTCCCGACCGAGCGCACGCGGCCGACCAAACCGTTGAGGCAAGTAGCTCCGACGGGAAGGCAATGCGCAGCCGAACGGTGAAGGAAACCCAAGAAAACCGAAGAGGAGAGAATGGGGAGAGGAGGGATGTGCGCAGCAGCCGAGAAGAGACTTCACCAAGCATCCTCCACTACCACGTACGGCGGCAGGAGACGGTGGCCAATCCGGCGTGCGCTTACACGGCAAGC

Coding Potentia
Explanation CPC Score
noncoding -1.22753
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0165300.1 2 17886832 A G
Osa02LNT0165300.1 2 17886946 A G
Osa02LNT0165300.1 2 17887306 A G
Osa02LNT0165300.1 2 17887872 T C
Osa02LNT0165300.1 2 17889221 C T
Osa02LNT0165300.1 2 17889254 T C
Osa02LNT0165300.1 2 17889517 T C
Osa02LNT0165300.1 2 17889026 G 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
Osa02LNT0165300.1 osa-miR5537 Cleavage 4.5 15.465 1 22
Osa02LNT0165300.1 osa-miR6256 Cleavage 4.5 18.279 1 22
Osa02LNT0165300.1 osa-miR6256 Translation 4.5 15.203 1 22
Osa02LNT0165300.1 osa-miR1438 Cleavage 4.5 20.983 1 22
Osa02LNT0165300.1 osa-miR531b Cleavage 4.0 22.284 1 20
Osa02LNT0165300.1 osa-miR2275a Cleavage 4.0 14.863 1 22
Osa02LNT0165300.1 osa-miR2864.2 Translation 3.5 13.507 1 21
Osa02LNT0165300.1 osa-miR2920 Cleavage 4.5 22.103 1 23
Osa02LNT0165300.1 osa-miR5151 Translation 4.0 14.705 1 22
Osa02LNT0165300.1 osa-miR2093-5p Translation 4.5 14.988 1 20
Osa02LNT0165300.1 osa-miR2275b Cleavage 4.0 14.863 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0165300.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0165300.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0165300.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0165300.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
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