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

>Osa10LNT0067900.2

GCAGCATCTTGTTTTATGTTTCTTTCATTTCTGGAGAAGTTGTAACAAGTGATGATGACATCCTGTGTTTCAGGTGCGCCACTCTGCCCTCTTCAGCATCTACTCTAGGTATAATTTGATGAGGTTCTGGATCGAGTATCAATGAATAAGGCATTTCTTCTTTCAAAAAAAAAAAGGCATTTTTGGGCGATGAATGCTTCTCTCGGCAGGATGAATAGGCTTCTCCCACATGAGTAGATGCAGCTGGAAGGAGCACAATGGGTATCGGCTCAAGGAAAGCTTTTGGCTGATCGAGAGAGTGTCAAAGCAGCGGATTGCCCCTGAACTAGAGATCATCCAGGGCAGGACCTTCTCATTGGACACCCTTGAGATGACCAGCAATTTCGATGCCTCTCTTGCCCGGTTGAACAGATTGTGCATCCCTGACCGTGTTGACGGTGTCTCGCTGTCATTGTCATCTTGCAACACTGAAGATATGTAGATAAAACCCTCCTCAGTACGGCTGATTGCAAATCCTAGTTTTGTGTCACCTACTTTAGGAGTGATCTCCAGTGGCATTTCTCCTCCTATGGAGCTGTACCAAAGTCGGGCTGCCTTCACCACCTCAGTGTTATAGCCTTGGTAATCCTCCAAGGTTGCATTTGACAGATCAGGCAACAACCCTGAATTGACAGTTGCAGATGTGGCGTCTCCAACTCTCGATATCTTGGTGAGAAGATCATCACTCTGCACACTCATCAACTTGATGGGGACACCAGAGGCCTGCGAGGCATAGAGCCATGTGTTGGCACGAGCCAAGGTGACCTCGAAGGACTCGTATAGATGTGACTTCATGTCCAACGCCATGGGTAGGACAAGCATTGAGAGGTAGCAGCTAGAATCAGGCATGTGCACCGAGTCTTGCATATTCCCCTTCATGGCATATGAGATGTATGCATCTTCTGCCTTTCTTGGTGCTGTTGCAAGTCTTGTGCCTCCATGGATTGATAAGGCACCTAGAAACTTCAGATGCCACGGATACATTGATGATACAGACCTGATATCAGATTGTTTGTACTTATCTGGGTCTTTTGGTGCATACTCATCATGTTCTAAAATCCCATGTTCTTGCTCCCGTGGCAGAGGCACAATACTTCCAACTTGTTTGTTCGCATCACTTGACTCTTTATCTTGAGTTTGATGATATTCATCGAAGTTGGCGCTCATGATAGCATTTTGTTCTTCCTCAGACCCATGATCTTTCTCTTTTGTCACTCTATCACCATAAAAAATCTTATCCACCAACTGTACGTTGATTCTAGGATTGCTTGGGTGATTGCTAACAGCAGATGTCAATGCAGACTCTGCGTCGACACTTGCACCATGAATTTTTACTGAGATTTCTTTGAGGCCTAACAAGTGTCCAATCCTGATAGGTGCAGTACCATATAGATCCCCAAGGGCACTGAAACCTAACTTGAGCTTCCTGAGATTAGGCATTGCCCCTGCCTCAAATTTCAGCCAAGGTACACTACAATTATACTTGAAGTACTTGAGAACTGAGAATCCTACCTTATCAAAGAAAATGTTTTCTACAGATGCTCTGTGCACATTCAAAGATAGAGCCATGAGGGCAGGCAATCCCCTGAGAATATCAACACTGTTCTTTACAAGCTCCCTTACTGCAATCTTTAAAATGCATAGGTTGCCAAGTTCTCCAATCCACTTAGGAACTCTGTAAAAGATGCAGCTGTGCAGCAACCACTCAAATCTCTGGAGAAGAGGTGGAGGTGCCAAATTATCCCACAAAATAGTTACTTCTGAGGCTCCTGAAGCCGCAATTTTCTTTTGAGAGGAAGAAGAAACTAGAGTTAGATTTTTCAGATTACCAAGTCTTCCAAGCAAAGAGCCCAAAATTTCCATGTTTCTCTCTAGATGTTTGGAAGGCAGTGCACAGAAGGTGAGATGAATATCCCGTACGTTGTTCAGATTGCTAATGATGCCCCCACTGGGTGATGAGTTACTACTGCTTGATCCTAGTTCGCTGGGAGGTGTCATGTGGCCCATCAAATCAATCAGATTCATATCAAAACGAAGATGGAGGTGTAACAAGCACGGGAGAAAGATAATATCCCAAGGAACAGCAGTGAGTGTTGTATCCATCTGCAACGTTTCTAAATATTTTAGCCCTCGCATTTGGCTTGGTAGTTCTGTGCGAATATCGCATGCAATCTTCAAATATCTCAGTTGAAATAGTTCAGAAATCCCACTGAGGTCTAAGAGTTCATCACCAACATGACCAGATAATTGAAGGTTTAGAACACGAAGAAGCTTAAACTCTGTAAGAGAAGGCATACACTTACATAATCCAAAAAATGTAAGTGATCGAACTTCTGATGTTCTGATGTTTGTTGGTATTTTTGCATACTTTATGTCACCAAAGTGGACAGAAAGTCGACGAACTTTATCAGAAAGTTCCACATCCTTCCGGTAAAAATCTAATACCAGAACAAAGTTCTCCTCTACAGACTTGTATGCAATAAGATCTCGTACCTCATCATGAATTGTACAAGTTGACACCTCATTGTTGTAGTTGAGTCTGCTAGGTTGGAGGAATCTTCTGTCAATAAGTTCATCGAAATAGCTCCCTGCAACTTTCTCCAAGTCTCGGCCCTCTATTTGATCAATAAAACCTTCAGCCACCCATTTTTCCACAACATCATCCTTGCATATTTTATAACCCTCTGGATACATATTAAGATATAGCAAGCATGTCTTCAAGTAATGAGGAAGATTATTGTAGCTGAGGTTTAATACTTGCCGCGTTCCTTCTATAGAAGAATTTGTCAAAACCAAAAAATCTCTGAAGAAACAACGTTGTTGAGTGCTCATCATCCATGGGTTTCATCTCAAAAATATATTCGGTGTCATAACAGCAACATGTTAATGCAAGATCTTCAACCTGTGTAATTATTACTATC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.364954
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0067900.2 10 11652482 A G
Osa10LNT0067900.2 10 11655002 G A
Osa10LNT0067900.2 10 11655953 C T
Osa10LNT0067900.2 10 11656384 A G
Osa10LNT0067900.2 10 11656395 T C
Osa10LNT0067900.2 10 11656810 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa10LNT0067900.2 osa-miR6255 Cleavage 5.0 10.645 1 22
Osa10LNT0067900.2 osa-miR7693-3p Translation 4.5 15.139 1 22
Osa10LNT0067900.2 osa-miR156a Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156b-5p Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156c-5p Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156d Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156e Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156f-5p Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156g-5p Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156h-5p Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156i Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR156j-5p Cleavage 3.0 9.689 1 20
Osa10LNT0067900.2 osa-miR166a-5p Cleavage 5.0 20.051 1 21
Osa10LNT0067900.2 osa-miR166d-5p Cleavage 5.0 20.051 1 21
Osa10LNT0067900.2 osa-miR166e-5p Cleavage 5.0 20.051 1 21
Osa10LNT0067900.2 osa-miR394 Cleavage 4.5 19.152 1 20
Osa10LNT0067900.2 osa-miR156k Cleavage 2.0 9.689 1 21
Osa10LNT0067900.2 osa-miR156l-5p Cleavage 4.0 9.689 1 21
Osa10LNT0067900.2 osa-miR1439 Translation 3.5 17.309 1 21
Osa10LNT0067900.2 osa-miR827 Translation 4.5 20.974 1 21
Osa10LNT0067900.2 osa-miR3979-3p Cleavage 4.5 20.275 1 20
Osa10LNT0067900.2 osa-miR5083 Cleavage 4.5 17.286 1 20
Osa10LNT0067900.2 osa-miR5150-5p Translation 5.0 22.035 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0067900.2 10 nan Physiological trait Sterility R2309 RG257
Osa10LNT0067900.2 10 nan Physiological trait Sterility C701 C16
Osa10LNT0067900.2 10 qSPB2-1 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0067900.2 10 qSPBp10-2 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0067900.2 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
Osa10LNT0067900.2 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
Osa10LNT0067900.2 10 trdw10.1 Resistance or Tolerance Drought tolerance RG257 R1261
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
Osa10LNT0067900.2 10 11656346 Endosperm-type 9.303868294 -