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

>Osa01LNT0014100.1

AGATGAAACAAGATCCCGTTAGCTGTTTATCATATGCCTCGACCATCCAATGGTTCGGAGTTCAGACAGAAATCAAAGATACCACCAAACTGATTACACAACTGAACATTACACGCGGTACAGTACATGAATTCCTCTTGCAGGTTAGAATCCAGGCTGAAGTCTGATAAATTCTGGCCTTTTTGTTACCTAACTACACATCATCGCATATCCGGCAAGGCGAAAAATGGCTTGAATGTCAGGATGAACCCAATCACTGACACCATGTTCAGCATCAGGAACAGGATCTGCTCACCTGGTAAGAACAACCCAGTAATGTGCTTTTGCGCCCATGAAAACAAAATTCCAGCTGCTGCTGGAGCTACGGCTTTGAAGATTGACATCAGAGTGACAGAGATTCCATTTGCAACCCCTCTTTGTTCTTGCGTCACTGCAGTGTTTTGCAGGATGTTGCATGCAATAGTAATTGTAGCAGCGAACATATTTTTCAAAAGCGAAGCAATGTTGATGAGTACTTTGAGCTCCAGACCATACAGGTTAGCCATGAATGGATATGTTGAAAGGAGAAGTATAGACAAGACCGCTGCATAACGGAATGGCTTGATTGGCCCAACATATTTAGCAAGAAGCGGATAAATCGCAAGTTGGTACACCAAAACACCAAAACCGGAAATAGCTAGCACGATACCAACATCCTGGGATGTAAAACTCAGGCCCCGGTATTTTCTGCTGCTCACAGCCCAGAGTGAAAATATCTCAAGATAAGCTGTATCATGGAGAGAGAAGACACAGTAGAGGGTAATTGCTGACATCAGCTGCCAGTTCTTCAGCAAACTCTTTGTATGGCCCATTCTCCCTGATCCTGATTCTTTAGTTGTTTCTCCTAAGTCTGAAGTCGCATCTTGTGCCTCTAGTGCATCAATGACTTCTTTGTCATCATGGTGCATGTGCAGGGTTTCCGGAAGCCAAATACACGCAACACATGCTCCTGCTGCTAGTACCGATATGACGAAGCAAGGGAGAAAGTAGGGAAACCTCCCAAATACCGATTCTTCAGAGAAAAGATTTGGGTATTTCTTTGCAGGCTGCGAAAGAAATCCTCCAATAGCTGGTCCAACAACCAGAGCTATTGCTCGCGAGGATGTGACAAGGGAAATTCCAAGAGCTTGGTGCTCCTTCCTGCAGACCTCTGAAGCATAGGCCTTGATTGGTCCTAGTATACCACAGAGTAATCCAAGTAATCCCCTGGTAACAATTGCCATCCAGTAAGTCGTGCTGAGGCCAAAGAGTGTGTTAAACACAATCACTGAGAGGATACTGATCACAATGCAGGGCTTCCTCCCATATTTGTCAGCAAAAATGCCCCATGGCACTGCACTGATAGTTCTTCCAAGGAAATAAGTAGCCCCGACAAAACCGGCATAGAACCCAATATCTTGCTCTTCCTTTGCGACTTTCAAGTCCCTGATCATGAAGTACAGATACGGAAACAACGACTGAATTGGCAACGCGGCACACAAGCAAGCGATCCAAGTGTAGAGGAAACCCAGGTAGGGAAGCCTGTCATTGGCCTGCACCTTCCTCTGCTGCCTGCACCCGGGGCAGCGTT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.906634
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0014100.1 1 9892950 A G
Osa01LNT0014100.1 1 9889711 A G
Osa01LNT0014100.1 1 9890853 T C
Osa01LNT0014100.1 1 9892190 T A
Osa01LNT0014100.1 1 9893053 G A
Osa01LNT0014100.1 1 9893785 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
Osa01LNT0014100.1 osa-miR5526 Cleavage 4.5 13.729 1 21
Osa01LNT0014100.1 osa-miR6254 Translation 5.0 22.765 1 21
Osa01LNT0014100.1 osa-miR1427 Translation 4.0 24.982 1 21
Osa01LNT0014100.1 osa-miR2092-5p Cleavage 5.0 19.605 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0014100.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0014100.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0014100.1 1 nan Resistance or Tolerance Insect resistance RM576 RM3412
Osa01LNT0014100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0014100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0014100.1 1 QBphr1 Resistance or Tolerance Insect resistance R210 RZ382
Osa01LNT0014100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0014100.1 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