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

>Osa01LNT0036000.2

GTTGAGGATAATACTTTAGATGGCAGGTAGGGTCTAAATTCACAACCACAAGACAAACAACAATACTAGCAACATTTCGCTATGCAAAATGATTGTTGAAATGAATATTAACCATATTGTAGCAAGAACTAAAGAATCCCTATCAACCGGTGTCAACAGTCTGCATCCTTAGAAGTCCAACAGAAACTGCATGGAAACGAAGGTATACAGAGGTATCAAATGCATCATGAGCTGGTGTGTGATGCTCTCACCTGAATTCTAATGAAATGTTCTCTTCTTGTGTCATCATTCATCAAGAGTATCCAAAATCAAAACCATATCTCTTCATCCTCATTCCAAAATCTTCATCATCCAGCCGGAAGTGAAGGGGTTAAACCGACGTGCTATGTCTTCCCATTATAATTGTTTTGTCCAGGAATTATTTTTCATTTATGAATGTGGACGTGAATATACCTCTCCAATTTTAACAACACTGATCTACACCAAAATTCTGTTTGTTATTTGCCACACATTTGTGGAAACCTGACGATGCGTACATTTTTAAGCCATTTTGATTAGAAACTACCATAACTATGACCAGGTCTCAGTGTGAAATTTGCCGTTCCTTTCTAGTTTCCTGAGCCATATCGAGGCTTCCTCTTCTGAACAACCGGTTTCTTGACAGATAACTTCTTCCAGTGCAGCTGTAACATCAGCTGGCATTTTGGTAGACGAGCCTGCAATGTATATTGCAGCCCCAGACTTTAGTAAATTCCACACTCTTGCACTCTGCTCCCTTATCCTGTGCTGCACATAGACTTTTTGAGGCTGATCTCTAGAAAAGGCAACAAAGAAACCACCGCCATTTTTCGAGGACAATACCCCCTGGTCATGGGCATGAGCATACCAGAAGTCCTTGTATAGAAAATCATTTTCTTGATTTCTACAGCCAAAGAAGAATAGAATGGGTGCTGTTGCTTCTGATGTACTCTGTGCAGCCCTTTCCGCAACAAATGCACAGAATGGTGCACATCCAGTTCCTGGTCCAATAAGAATAAGTGGAGTCGATGGATGTGGAGGAGGCAAAGAACCGTGGTGTACCCAACATGGTATAAGATTTTCTTCATTTGGATTTAGCCCAGCCAGCCATGAAGAGCAGAGACCCCGCCGCATCCTTTTGAAAGGAGTACGCCATGACACTATGCTAACAGTCAAGTGTATTTGATTTGGTTTTGCTAATGGAGATGATGATATGGAAAAGGCTCTTTTCTTTAATGGAGGCGTTAGTTGCACCAACCATTCAAAAGGCATTTGTACAGAGGGAAAATCATCCAATACTTCTAGAATAGTTCGGCCCTCCTTTTGATTGTACTGATAAAGGTCATCTCTTCCTTCCGGAGATGCAAAATACTGAAGCTTTTCCTTTTCATGTTCAGCCGTTGCAAAAAAGCTCATGACCTACAGCAAAACATTAGACTTCCTTGTAGGCATCAGGATATCACAAGAATCAATAAGAAATAAAAAAAACAAAAAAGCTGTTGCATAAACAAGGCATTAAGGATGATGTCTTGCCTCAAAGAAATATCGCCGAGGGGAAGCTGATGCGACATCCATTGTCAAAGCAACAAAGGTTTTTAACTTGATACGATCTTTCAAAAGTGAACCTTTGGAAATTTTAACCCTGTCCTTGGCTCGAACCGTTATGTAACAATCTGGATCCAATTTACAGCGTTCAATGAAAGAGTCAACAGCTGATGGACTCTGACTTGGTAGAATTTCTAGCGCGTCGCCAACTTGATAAGTGATGCCAGAAGATGGATTTTCCAGTTCAAAGTGGCGCACGTCTCTGTCAGAATTTTCCTTAGTCAAACACCGATTTGATACCATCTGTAACATGTAATGTGGTTCTTTGTCATTATTATAGAACTGTAGAGAAGGGGACATTGAGCGCGCTCTCTGAATTAAATTCTTGAAATCCAAAAGGTTAGAATCTTGTTGAGCCTCGTCAGAAGAGTGATAGATGACTTCGACTTTTGCATCTCCTAAGACACTCAAATCTGGATTAATGATATCATACATTCTTGGTAACAGCGATGGAGTTGTTTGATTCAGTGATTCCCACAAAGACAGCAACCAGGGATCTAGAGCTCCTTCATATCCTGAAGGGTGTTGATCATCTCCCAAGCCTACCTGTATGATTGGTTCTGCACCAAGGTGTAAAAGCCTTTTATCGAGCTTTTTTGCAGCAAAATTGTACTTCTGATAGCCTGAATCTCCGAGCCCAAACACAGCATATCTGACCCCTTCAAGCCACCTAGCACCCAAATTCTTCTTAAGAAGGTACCTCCAAAACCCCTTCATGGAATCCGGGGGATCACCCTGCCCCGTGGTGGACACGACGAAGACCACGAACCTCTCGCTCGGAAGGCAACTCTGAAAAAAAAAAAACAAGCATGCGCATCAAGTCGAGCTGTGATCACAAGAGGTCAGGCGAGAGGACCGTGGCCCTGGGGATTCAAGGGTTTGAAGCTTACGGGGTCGAAGCTGTCCATGGGGAGGACGTCGACGGCCGGGCAGCCGCCGCGCTCGGCCTGGCGGCCGACCCGTTCGGCGGCGTCCATAGCGTTCCCAGTCTCCGAGGCGTATATGACGAGGAGGCGGCTGTCCGCCGCCGGAGTCGCCGCCATGGGCGTAGACCTTGACACCTTGTGGAACCAGGCGCAGCGGCGCGGCGAGGAGGGAGAAATTTAACAATATGCCAAATGCCACCCCCTGTGTCCTTCCCAGGCGGCTGTGACGACTCCTTCCCGGCGT

Coding Potentia
Explanation CPC Score
noncoding -1.22018
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0036000.2 1 30593712 T C
Osa01LNT0036000.2 1 30595485 G A
Osa01LNT0036000.2 1 30595625 G A
Osa01LNT0036000.2 1 30595834 T C
Osa01LNT0036000.2 1 30596611 A G
Osa01LNT0036000.2 1 30597137 T A
Osa01LNT0036000.2 1 30598472 T G
Osa01LNT0036000.2 1 30598605 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa01LNT0036000.2 DTM_#DNAt_MULE_japo_Os1228 Chr1 - 30598501 30599270 139
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0036000.2 osa-miR812v Translation 4.5 10.84 1 24
Osa01LNT0036000.2 osa-miR5814 Cleavage 4.0 17.325 1 24
Osa01LNT0036000.2 osa-miR7693-5p Cleavage 4.0 21.3 1 24
Osa01LNT0036000.2 osa-miR167e-3p Cleavage 4.5 19.771 1 21
Osa01LNT0036000.2 osa-miR167i-3p Cleavage 4.5 19.771 1 21
Osa01LNT0036000.2 osa-miR417 Cleavage 5.0 11.792 1 21
Osa01LNT0036000.2 osa-miR2920 Translation 5.0 10.294 1 23
Osa01LNT0036000.2 osa-miR2920 Cleavage 5.0 12.874 1 23
Osa01LNT0036000.2 osa-miR5077 Translation 5.0 21.929 1 19
Osa01LNT0036000.2 osa-miR5338 Cleavage 5.0 15.234 1 21
Osa01LNT0036000.2 osa-miR5492 Translation 5.0 14.954 1 21
Osa01LNT0036000.2 osa-miR2928 Cleavage 2.5 13.642 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0036000.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0036000.2 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0036000.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0036000.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0036000.2 1 qHUS-1-2 Others Others RM246 RG101
Osa01LNT0036000.2 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
Osa01LNT0036000.2 1 yld1.1 Physiological trait Source activity RM5 RG462
Osa01LNT0036000.2 1 nan Morphological trait Root RM3475 RM3494
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