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

>Osa02LNT0175200.1

GCTCCATGCATGTGTCCAAACATTTTATGTTACGGAAAAGTTAGAAGTTTGAAGGAAACTAAACACAGCCGTAGCTATGTTGATGGGCTTGTAGTAAATCTGATTACCAACAGCATAAACAGTCCTGTAATAACGAATCACAAAGTGTACAACTAGTCTGTAATATAAATCGTTTGAGAGTGACGATATGCACAAATCAACTAACACTAGAGAGCCTAGCGCATCTGTCTATAGCAGAAATGTACTCATTGGGTTAGCAAAGTAACGCTTGTTACACTTGGATGGTTCTTTACAGCGATCTTGCTTCAAAATACTCTGCAAAAGGGTAGGTGCCGAAGGGGCACGTTCATCAAACACCCGAGCATAAAGGTGTTTATCAAACATCAGCTTTTCCAACAAGGTCCGGCAGGTCTGCGGGTTCAACACATCCATCCGATGGATGATATCCTCCTCCACTACTCCTGGATATTGCATGGTATATCCAATAATACGACGACTTAGACCTTCGTAGACAGTGTTATTCATGCTTCCATCACCATTTATCCATGGCAATATTGGGTGATATATATGCCTTTCGCAAGCATGACAACAATCACTGCCCCTGTTGTCTTGTGCTGGAGTAAACGACCTTTTCTGACCTACAGGACTTTGATAGCGTATCTGAGGAGAGCTTGACTTGCTTTGGACATTAAGAACCGTCACAGTGTGCCCGTCACCAAGCATTTTTACACTCCCTTGCACATCACTAGACATTGCATGCTTCTCTCTCAGTAGATTTTCTGTATCTCCAGTCTCGGCCATCTCAAAAGCAGAAGCTCGCAAACAACTGCAATGACTTGAATCTGCAAGTGTAGTTATATGATATTTTGACTTATGTATAGAGTCAACAATCTGCACACCATCATATGCATTGACCTTAATGACCAGCTGAAATCTCTTGAGAGTATGAACAATCAGATCGACAAACTGGATGCCTAGAGGATCCAGTGCCTGTGACATCTCTCTCAAATTAACTCCTTGTTCGCCAGCTTTATGAACAACACAAAATGCATTTCTGAACAGGTCAGAAGACAATATGTCTGGTTCATTTTTGTTACAACATAATGATGGTGACTGTTCAGCATATGTTTTTATAGCATCCCAAGGCCACCCACTGTAAGAGTTCTCCAAATGAGATTCTGACAGTAAACGCCGACATGAACTGGAGTTGTTTAGATACAATGATGACATATTGTGGCTTTCTACCTGTGAATCAACATCCTTGCTCCCCATTTCCCAGGCTGAAGTAAAAATAAGGCATTCTTTATCATGTAACTCTTGTGTAAGATTACTTGTTTTAATTCTCTCTTGATTCAAAGCCACTTGAAGACCAGGGAAACCTTTCTCTCGGCGATAGCAAAAGTCGCTTTCTATCTTGGGCAAAGGTTTGTGTTTCTTAGTCTTACTGCTTTTAAGTTTAACCATATCAGCCTTGCGTTTGTGACTACTCTCATCCAATTCACTGTTATCATCAACAAACAAACTAGAGCTATTAGGCTCATCAGCCTCACCAACTCCTTCACTTGGCAATGAGGGTGAAATGAACGACTCTCCAGACAAAACAAGAGAAAAGAGCTGGACAATTTCCCCACATTGTAGATCTGGATACAAACAAACTCCATCATCCATGGTATTCTTTTGCTGCCCTACCCATTGAGAAAATTCAGAAGCTTTTTTCCCTGAACCAAATGGGAAGGGTGAATTCGAAGCATTAAAAAAGAATTTCCCAGAAAGAGTGTATGGCTTTGTTCCATCTCCAGTTACCATGAAATTTTTCTCTCTGAGAAAGGAAAAGGCAGTAAAAATTTCAGTCTCTGAATAAAGCTGGAGGGTTGCTGCTAACGAAGCTTGCACTTCTGGTCCTGATGAGGTGCTGAGAAAAGCCAGCTTCAGAAGCTCTAATGCATTTGCAACTGCCAATGATCTGCATACATCTCTTTTAGCAATATCATCTTTATTATGGTTAATGGCCTTTTCATGAGATCTGAAGGGAATGTCCATGTTTTTACTTGCATGGATTGCATTTGACAGCCTATAGGATTTTGCATGTTCACGGAGTCCACTTTCTTGAATTGCAGTGCTTGCACAGGTTGCACGTGCACCTAAAACTGGCTGTTTCTGCCCATTTGGAACTTCCTTGGTGGCATCATTATCATCATTGTTCCTTTCATTCTTAGACCCAACTCTCTTGGTCTGCTCCATTTTTTCTACTCGAATGAATTCAAGGACTTCATCAAGTGCACTCTTTATCTCTGGATCCTCGAAATTATCCCAAAAGAATTGCTCAGAATCTGGATCCACACAGTTGTCATGACTAGAATTTGAGATTTCGGAAGGTAATCCTCTCAATTTCCATCTCTTTTCCTTTTCAAGGTACCTAGCGTATCGTATCCCTAAAAGGTCACAGACTCGGCTCACAGCTGGTCTTATGTTTGTTTTTTTCCTCAAGTATGCTATCCTTCTACGGCATGCAGCTGGTGGAGCTGGAAGATCAGAAAGAGAGTTCCAATCTACGCGATGAGATACTGCTCCAAGTGTTGCACGGGATCTAGTGTATATCATCAGCAATTTTCTGTCAGAATCGTATGTCCACACAAATCGTTTCTCTCTCATGCAGCTTCCTCTTAAGATGGTAGATCGACTGATCCTTGGACTGCTTATCGTATCTTCATCCACCTGTGGGAGAGAATCAGTATGGAATGTGGATGGAGAGATTCTCTCAGATACCTCCTCATGTGGGATAGACTGTGCTGGTCTCGGTTCAGTGGATTCAATGGTTTCAACATTCCGTTTGATAAATTTCAGGGTAATCTCATCAGCAGACCTTTTCCTTTTTTTAGAGGTTGATCCTGAATTAACTTTTCGCCGTTTTCTTGCAGCAGGGACGGTGGGCTGTCCATGAAGCTGTCTATTCTGAGAGGACGATACACAGAGCACCTGCTGTACAGAGAGATTCAACTCCCTGGCAATTATACGACAATCTCTAAAAGGAAGTTTTCCATTCTCACTGGCATTCATAATGCGCTGTTGTAACTCCAGTCTTTGTTCAGTAGTCATTACTCTAAGTGAACTCCATGAACGAGGATGAGAAACCTCTGGTACAGAACAGCCAGGAAAGGCACTTGATGGCTCAGCCAAGCCAGCTGTTAAATAACAGTACTCTAACGTTTCCCAGTAAGCATCAACAAACTCCTGCCTTGAAAGAACAAAATCATGCCGAATTTTTGGCCGATGGTTCACATTAACATGGGATGATGGAAGAATTCTTGGTGTAGGCTCTTCAATGTAAGGCCTCAGCTCTATTGAATGTGTAGGCAAAGCATCTGATGGCGCACCAGAATCATCTACAAGTTCCTTTGCAAGTTGGACAAGCTTGAGCTTATCTAGAATATTTACCAAGCGTGAGAGTCGGCCTTTGGCATGAGTATCCATGAGTTGGTTGTATTCCTCGGTAGGAATTTCTGAAAGCGTTTTTCCAAGCCTACACTTAGTAATCATGTGATCAATCTTCTTTGCTGATCCCACAACTTGCAGAAAGAGTTCAAGAGGCATTTTTTTTGTAGCTCCCACCATAGAAAACAACACAGACGATTGACTAAGGTTCTTGTCATGATGCCCTTCTTTGTCATTATCAAATGGGTCACACCAATTTGGCAAACCACTAACATATACCCACAGAAATTTATGGAACAGCTTAGCTCGAATCATCTTTGCACCAATGAATCCATTGGCATGCATAGCTTCTAATATTAATGGTTTGTTATCTTTAACTCTGCGCGGAATCCTCAATCCAAGTATAGCAGTCGTGTGTTGATTTTGCTTCAATTTAGCTGCTGCACCTGAACGAGTTTCTGTATCAAAGTTCCTTTGTCTATTCCTAATTTGATCCACAAGTTCCGGTGACAAGTCTCCAACAGAAGAATGCAGTATTACATCAATGAGACGACTGCGGGTGTAGTCTGTAACCAGAGGGACACTAACTTTGATGCATTTACAGCTGCCCTCTTCCTGAAGCTTATTTAAAGTGCGAGTCAATGTCTTCCTATCCATTATTTTTCCATTTTCTTTTTCAAGTCCCTCTAACCATTTATGTAACTCCACCTTTAGTACAAATTTCTTTTTCTTTAGCATGTGAAGAATCCTCCTATGCCGTCGATCATCAGAAGTCAATGGAGGGCAGCGACGCCTCTTCCTCTGACCCAAAGCAAGTTTCTCTAAAACAGAAATAAGGGGCTCACTTTGGTTAAGCTCATTGATTTTAATGGTGCTCATATATGTCAACATTCAAACTTTGTAATTCTTTTTTCAACATTTAATTACAACTATGTAGGTTCACTTGCAATGCAGCATAAAAGTTGTATCACAGATTCAGTTCAAAAGTACTTTCATATGATCGCCTTTTGTGGTGATAAGAAATCCTAAAAGAAATTTATGGTCAAAGTTCAACTTGGATATCGTGCTAACTCAAAGAATTCCTTAAGAAAAAGAAACACAGGGAGCACAGATGACAAGTACAAATAACTCGCAGAACTCAAAGTTAGTTCGCAAGAAGCTTGGCACATACAGTTCTCAAAAAATGCACTGTACTAACTGGATGAAATATAAATCACTAACTCAGCCGTATAAATCTCTCAAACTGTCAGAACTTGCCTTTACTTTTGATCTTTGGAATACTCGATAAAAAAAAAGGTGCAGGGTATGAAATAGATTACATACCTGGTTATGAGCCTATGAGCTTATTAAACAGAGCATATGACTGCACATTTACTTGGACGAAAATGTGAAGCCATTTGGATATATGCGACTAAGGGTGTTCAAAAGTAAGGTCAATAAGTGAAGTTTTAAGCAGCATAAAATACCACAAGCTCCTACAACAGCATGGCACTCCCCCAAAGAGGTACTAAGCACAATTTTTTGAAAGAATAAATAGAAACTACCAGGAACATAGATCACTGTACCTTGTTCAACAATTTGAGAAACCCCAACGCAAGCTTCATGGTTACTCTGGAGGGGATGTCCTGCTGGTTTATTGTGGCATTCTTCTTCCAACAAAAGCTTGTTATTATCAACAAATAAATCAACCCGTGAGATTGGAGATTCTGATCCTTTAGATGGAACTAATGACCACAAATCAGAACACTTCTCGTGGTCATCTGGGAGTGCCTCCAAATTATGCAGAGCAGCACCAGCTTTGTAGTGTGAAAAGTTTTTTGAAGTCCAAACTCGGTATTGTGATGTCTTGTCTTGAACTTCAGCTTCCCAAGTCAAATTGTATTTTTTAAGCATGGATGACACTCGCTTATGAAGCCTTTTTGAATTGTTGTGCCCAAGACGTTTGCCAAGCTCAACAAGGGTTATTCCTTTTGGCCCTTGAGCGTTGATCATATCGTATATACAGTTCTCTAATGGAAGCTCCATGACTTGATCAGTTGCCTGGCCTTTCTTGCCAAGTTTGTAGTTTGAGGTTGTACTTTTTGGCTGAAATTCATTTGGATCGAATTTCTTCAACAGACGTAAACAGCGAATAAACTTATCATCAACTTTGGCATCAAATTCTTCAATAAGTTGTGCGTCTCTTAGCCTATGCAGTACATTTCTCCATGCTCTGTGCCCATATGTCATCCTGTAATTGAGATCTACTTTTATATCCGAAACAACAAGAGTCTTTCCACTAGCTTCTTCTAGTTTATCGCATATGGCTTTCATTGCTGGAAGATAATCATGAATAGATATATCATTTTTGTCATTTACACCAAAAGCCCCATCTTCTTGCAAAACATCTCCATTGCTCTCTTCATTGCTGCCCAGTAGTTCAGGCTTTATGATCTCAATTCTCTGTTGTGAATTCATATTCAGGTTTTTGGCATATCGCGAGAGATACAATGAGTTAGTATTGATGATTTGTTTATTCTGGGAAGCATCTTCGGCATCAGCTCCATGATCTTTAACCTTTATAATAGTTGACTGCCTAACGATTAACTTCTGCGACTGAAGGCTCTTTACAATAAAGTGGAAGTTGTTTCCTTTCATACGGAAAGTTTTGCATAGATCATTTTGCGTTACACCAGAAGTCCTGCTTGCTCCGACCCGTTCAAGCGCCCCCTTCTGGACGGCGCTCAACTCCGATTTCGCGAACCTGCGGTCATACATCCCGAGGAAGTTGTCCCTGAGCGCGGCGCTAGCGACCAACCGCACCCCCCGCCGCTCGGCCTCCTCCACGTCCTTCTCCACCGGGTCGACGGGCGCCCCGTCCCCCTCTCCCACAACGAGGCTGATGATGGGGAGCGCGATGAGGCGGGCCCAGAGGACGCGCTTGGCATCGAGGCCGGGAGAGAGGCCGGCCGCCTCGAGCGCGCCGCGGAGCGCCGGCCAGAGGTCGGTGACCGGGAGGCCGGGCGAGAGGCGGGCGCACACCTCCTCCAGCGCCGCCGAGACGAGCGCGTCCATGCCCCCGCGGCTCGTGTAGGGTGGTGCGCCCCGGTGTTTCGGGAGGTTTAGGGTTTTGGCTACGGTCGCATCTGCCTCTGCGCTCGAGGAGGGCTCTGTGGTCGGAGGAAGAGGAGGATTACTCGCCACGCGAAGCGGAGCTCGCCGCGCTTGCCGGCGGTGTGGCCGCGGTGGGGAGTAGTGGA

Coding Potentia
Explanation CPC Score
noncoding -1.12733
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0175200.1 2 25379698 A G
Osa02LNT0175200.1 2 25379877 C T
Osa02LNT0175200.1 2 25380205 A G
Osa02LNT0175200.1 2 25380237 A G
Osa02LNT0175200.1 2 25380319 T A
Osa02LNT0175200.1 2 25380372 A G
Osa02LNT0175200.1 2 25381326 C A
Osa02LNT0175200.1 2 25381346 G A
Osa02LNT0175200.1 2 25382033 G A
Osa02LNT0175200.1 2 25382314 G A
Osa02LNT0175200.1 2 25382715 C T
Osa02LNT0175200.1 2 25383103 G A
Osa02LNT0175200.1 2 25383829 A G
Osa02LNT0175200.1 2 25384004 C G
Osa02LNT0175200.1 2 25384484 C T
Osa02LNT0175200.1 2 25384535 T C
Osa02LNT0175200.1 2 25384863 A C
Osa02LNT0175200.1 2 25385173 A G
Osa02LNT0175200.1 2 25385292 T A
Osa02LNT0175200.1 2 25385663 A T
Osa02LNT0175200.1 2 25385867 G A
Osa02LNT0175200.1 2 25386058 T C
Osa02LNT0175200.1 2 25386626 T C
Osa02LNT0175200.1 2 25387628 A G
Osa02LNT0175200.1 2 25387639 C G
Osa02LNT0175200.1 2 25387926 C T
Osa02LNT0175200.1 2 25388233 A G
Osa02LNT0175200.1 2 25388466 G A
Osa02LNT0175200.1 2 25388503 A G
Osa02LNT0175200.1 2 25389512 A G
Osa02LNT0175200.1 2 25389770 C T
Osa02LNT0175200.1 2 25390805 C G
Osa02LNT0175200.1 2 25391357 G A
Osa02LNT0175200.1 2 25391610 T C
Osa02LNT0175200.1 2 25391657 G A
Osa02LNT0175200.1 2 25391985 G A
Osa02LNT0175200.1 2 25391999 G T
Osa02LNT0175200.1 2 25392111 T A
Osa02LNT0175200.1 2 25392507 C A
Osa02LNT0175200.1 2 25387267 C T
Osa02LNT0175200.1 2 25385007 G A
Osa02LNT0175200.1 2 25383655 G A
Osa02LNT0175200.1 2 25383791 T G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0175200.1 osa-miR5542 Cleavage 3.5 15.558 1 21
Osa02LNT0175200.1 osa-miR5821 Cleavage 5.0 14.157 1 21
Osa02LNT0175200.1 osa-miR2873c Translation 5.0 15.439 1 21
Osa02LNT0175200.1 osa-miR6247 Translation 4.0 12.861 1 21
Osa02LNT0175200.1 osa-miR395f Translation 5.0 12.403 1 21
Osa02LNT0175200.1 osa-miR396a-3p Translation 4.5 22.632 1 20
Osa02LNT0175200.1 osa-miR396b-3p Translation 4.5 22.632 1 20
Osa02LNT0175200.1 osa-miR1850.3 Translation 5.0 17.969 1 22
Osa02LNT0175200.1 osa-miR1852 Cleavage 3.5 13.201 1 21
Osa02LNT0175200.1 osa-miR1857-3p Cleavage 5.0 21.941 1 21
Osa02LNT0175200.1 osa-miR1428b Cleavage 5.0 15.077 1 21
Osa02LNT0175200.1 osa-miR1428c Cleavage 5.0 15.077 1 21
Osa02LNT0175200.1 osa-miR1428d Cleavage 5.0 15.077 1 21
Osa02LNT0175200.1 osa-miR1861c Translation 5.0 17.184 1 22
Osa02LNT0175200.1 osa-miR1861e Cleavage 5.0 11.7 1 22
Osa02LNT0175200.1 osa-miR1861k Cleavage 5.0 11.7 1 22
Osa02LNT0175200.1 osa-miR1861m Cleavage 5.0 11.7 1 22
Osa02LNT0175200.1 osa-miR1861n Translation 4.5 17.184 1 22
Osa02LNT0175200.1 osa-miR1879 Cleavage 4.5 12.206 1 24
Osa02LNT0175200.1 osa-miR1879 Cleavage 4.0 20.701 1 24
Osa02LNT0175200.1 osa-miR2098-3p Cleavage 3.5 16.124 1 20
Osa02LNT0175200.1 osa-miR2098-3p Translation 4.5 21.096 1 20
Osa02LNT0175200.1 osa-miR2101-3p Translation 4.5 19.168 1 22
Osa02LNT0175200.1 osa-miR2878-3p Translation 5.0 10.734 1 24
Osa02LNT0175200.1 osa-miR812k Cleavage 4.5 18.531 1 24
Osa02LNT0175200.1 osa-miR812l Cleavage 4.5 18.531 1 24
Osa02LNT0175200.1 osa-miR812m Cleavage 4.5 18.531 1 24
Osa02LNT0175200.1 osa-miR1862f Cleavage 5.0 22.462 1 20
Osa02LNT0175200.1 osa-miR1862g Cleavage 5.0 22.462 1 20
Osa02LNT0175200.1 osa-miR5150-5p Translation 5.0 18.065 1 24
Osa02LNT0175200.1 osa-miR2101-5p Translation 5.0 16.179 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0175200.1 2 qRPA-2-c Resistance or Tolerance Other soil stress tolerance C424 G45
Osa02LNT0175200.1 2 Tiller number Morphological trait Culm/leaf R26 C424
Osa02LNT0175200.1 2 Sn2a Morphological trait Dwarf C424 G45
Osa02LNT0175200.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0175200.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0175200.1 2 qPTD-2 Morphological trait Panicle/flower C424 G45
Osa02LNT0175200.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0175200.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0175200.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0175200.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0175200.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0175200.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0175200.1 2 nan Others Others C424 G45
Osa02LNT0175200.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0175200.1 2 Hbd2 Physiological trait Lethality nan nan
Osa02LNT0175200.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
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