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

>Osa02LNT0140200.1

ATTGCATTATCTAAAAAAATCATTGTAGTACATTAGATATTTGTTCTCTGCTAGACATAAGCTTTCTCATCACCATGTACAAATTTCCGAGACATACTTCAACGGCCATCTGACTGACTCCACAATACAATTGCTTTGAGCCCTTAACGACCATGAAATGCCCATTGTACACAAGGTAATACAAAGTTACAAACTACAGTAGCACAAATGATTGTTACTCGTCGGCTAGCAAGCAAAAAAAAGATCAAGGACGCACCCCCATCCATCTCTGCTATCAAATCAAGGGTAAACTCCATACAACTCAATGATGAAGTAACAAAATCAACCGTCCTGTAGTTAAAGCTATCGTCTCCGTATATGATGGTACAGAGCTAAAATGATAACCAGCTCCACAAACCTGCTGCAAAAAAATCACTAGCCATCACCCTATCACGAGAAGAACCGTTTCTAAACTACAAACATGCCTCCGCAGAAATCATGCATATTGGACTCCAGCACATGGCCTTGTGCAGGCTAATTTTGGTGATTTTCCTCTGCAGGTTAACTAACACTTGGGGCAGACGCCTCCTCTTCCCCTTCATCCTTTGTCCTTTCATTGCAACTTTTGCCTGTGATATCGTCAATGGCTTGATCAAGTGCATATAGAGCTATCTTCTTAACCTCTAGTTTATCTTCATTCACCCTATGACCCTTCGGAAGCAAGCGAAATTCTTCTGTCAGCCTGATGCACTCTTGCACATTTTCCGGAGAAACAAAGTCAAGTGCAACCTTTATACATGACTTCAAATTTCTGACTTGGTGGGGACATCCTGCTGGGATAAACACAGCCTCACCAAGTTTCTGTTCAAATGTCCAAGGCTCAATTCCATGTTCTTCCTTGAGCTTTCTCTTGTGCTCATTTGTTAGATAAAAGCATTGATCGTGAATAGGATGAGAAACCTGTTTGACTGTTTCATAATTATAATGTCTAAACTCTTCTGCATGCTTCATCAGATAATCATGCAATTTGCTGACATCTTCACGTCGGAAGATATCCCACAATGCACCACCCTCTGTCTGATTTCCCTCAACAAATGGGTGATCATCTTTGGGCTCAATAGATATGGTAAATTTGTTAGTCTCCATGCTGGTTTCGTTTATTTCCCCTGTTGCACTGGAAGAGCAAGCATCACGTCGCCTACTGCGTCTTTGACAATCAGAAGATTCAGATGATCCTACACCATGAGAAGATTTACATTTATCTTCCCTCCCAAAGCCATTGCCCATCTCCTCTCCCCCATTAATTGTGCAGATAGAATGGTCTGTTTCCCCCTTGGAGAAAGTAATATCCATATTATGTGCATCACTTTGATTGGGTGATTGCCCATTAGACAGACTCAAGTTTCCCTCAGCTTCATCAGCTACCATATCTGTATGAACACCTCCCTGGTCCATTACAGCAACATTTGGTGCTGGCTGCTTAATGCTTGAGCCATTTTCAAGTCCTCGAGATCTTGGCACTTCAGTTGATTCACTGAGAGCTATTGATGTATCATCGTCATGGTCTGGTCGCAGAACATGAAGATTCTTGCCATCTTTACGTAAGCTCTCTTTCTTTTTCTCTATTGCTGTAATCCTTTCAGCTTTGAGTTCTACCTCATCAGTATGCATGAGAATATTAACCGCATCAGACATGTCGCAATGGATCTTCGTAACAGAATCACCTATTCCCAACTCTTGGGCGACACCATAAGCAATGTATGTCTTTGGACCAAGATCTGGCTTTTTAACATGTTTTGGAAGCTTCACTGCCAGATTAAGGGGACCAGATTTTGGATCTGTATACTCACGAAATGGTAGTGCAGACATGAACTCAGCACCATGCCGCGGCAGGCGCTCCTCAAAGGAACTATGTTGTGGCCAATCTTTAAGCTTAAGTAGCACAGGCAAATCCTCCGAACCAACAGCTCCACGGGAATACCCCTCAAAAAACATGTGAATATTTATATCAACCTCAAACCATGTCAGACAATCAAGAGCTATAACTGAGAGCCGTTCATGCTCTTTCTTGTCTCTCTTTTCCCGTAAGGCCCGCCACATAACCATTGGCTCCCAGCTCAGTCCAGAAGTTAGCTCAAGCACGTCACGAACAATGACTGGCTGACCATTCAACCAATGCTGCTGAAAATGATCTAAAGCTCCACTTTGAACTTCTCTAGCAGTTGGACAATATATGTAGTTATCATTGGAGTCCTCTCTGCAAGCTGATTTCCGTGATGTTTCATTGTTCACTTCACCGGATTCAGTGAAGCAGGAACATCTAGAGCCTCCCAACTCCTGCTCTGTTTCCTTATTGACCACTGAATTGACTTTATCCAGTAAATCAGAAATAAAGTTCTCCTTAAACAAACACCTAAGTTCGAGAAGACAATCCCCGCAACCACCTGCATTAGGTGGGCATGGTATGCTTCCGTTGCTTTTTGCCCTCCATATCAAACTAGGAGTGCAATCCTCTGAAGGAGCTGCACTACCTATCAACCTGTCATTCTGTTGATCAGAAGCCCCTTGACCTACAGCACTGCTATGACTACTTCCCTCTTGCAAACCTTCCTTGCCTTCTATTTCAGGTACATCAACAGCTGTGTCACAAGTGACAACAGTACCAGTAGTAAGACCTTGACGCAACTCCTGGCAGCAGCTGAGGCAGAGATCATAGTGACCACTTTTACAACTTCTGTGGAAGTCAACAATGGATGTTCTGCAGTTATCACAGTAAATCCGCTCATCATTATTAAACTGAGCTTGAGGAACCTCCAAGTCAGTTACATCGATCCCTTTAATTGTGGCCTCAACACTTTTCTCTAGCATCTGCTCTTGGTGAAGTTGTTTCAACCAAGGGAGCAAAAAGCGTGCAATACGCAGAGAGTATTTAATTTTGTTCTTACCATCGGCAAACTCCTTGTCACCCTTATTTATTACATTTGTCCGCAGACAAGTCTTACAATTGCAGTTATTGTGACAAACTGGACAGCAGTTCTCAAAATCGTCCTCTGTTAGATGCGGGTACCAGCGTTTGATGCACTTGACACAATATCTGTGCCTCCTGTTTTTTTCAGCACCATTCCGGCACCTCACAACTCTTCCACTGTCCTTCCTTTGGCACTGATGGCACATGGTTGAAGTTCCATCCATCTTTTTTGTGTGCTTATTCTCCTTGTAGTCTACCGCTGGAACGTTCCGCCTGTCCCTGAGCTTCCTGGGTGGAAGTTCAGTCGAAGAGGGATCAGCAACAGGACCCTTCCTGCGCTTTCTTGCGGTTCTCGAGGCCTGAGTCTGCCCTGCGCCATTCTCCTCAGGAGAAGCCTGCGTTTCCTCCTCCTTGTTTGTCTTCTCACCGTTTTCCTTGGCGGCGGCGTCCTCCGGGGCCTTGCGCGGCCTCCCGCCACCGCGCTTCCTCTTGGGCGGCATCCCCGGCTAGACCCCGCGGCGACCGGCGGCGAGGTCGGCGGCGGAGAAGGAGGAAATCAAATCAAATTGCGGCGCGGGTCGGGTCGGGTCGGGTCGAT

Coding Potentia
Explanation CPC Score
noncoding -1.08919
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0140200.1 2 516444 A G
Osa02LNT0140200.1 2 509057 C G
Osa02LNT0140200.1 2 509810 G A
Osa02LNT0140200.1 2 511597 C T
Osa02LNT0140200.1 2 513043 T G
Osa02LNT0140200.1 2 513066 A G
Osa02LNT0140200.1 2 512655 A T
Osa02LNT0140200.1 2 513153 C T
Osa02LNT0140200.1 2 513689 G A
Osa02LNT0140200.1 2 514055 G A
Osa02LNT0140200.1 2 515267 T A
Osa02LNT0140200.1 2 515877 C A
Osa02LNT0140200.1 2 517222 A G
Osa02LNT0140200.1 2 514468 G A
Osa02LNT0140200.1 2 509463 G A
Osa02LNT0140200.1 2 511860 A 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
Osa02LNT0140200.1 osa-miR5544 Cleavage 5.0 12.803 1 22
Osa02LNT0140200.1 osa-miR6247 Translation 5.0 18.304 1 21
Osa02LNT0140200.1 osa-miR395t Cleavage 4.5 15.568 1 21
Osa02LNT0140200.1 osa-miR395t Translation 4.5 18.633 1 21
Osa02LNT0140200.1 osa-miR395a Cleavage 4.0 15.568 1 21
Osa02LNT0140200.1 osa-miR319a-5p Translation 4.0 17.54 1 21
Osa02LNT0140200.1 osa-miR408-5p Cleavage 4.0 19.205 1 21
Osa02LNT0140200.1 osa-miR535-5p Cleavage 5.0 12.095 1 21
Osa02LNT0140200.1 osa-miR1852 Cleavage 5.0 24.831 1 21
Osa02LNT0140200.1 osa-miR1858a Translation 5.0 14.153 1 21
Osa02LNT0140200.1 osa-miR1858b Translation 5.0 14.153 1 21
Osa02LNT0140200.1 osa-miR812o-3p Translation 5.0 16.211 1 24
Osa02LNT0140200.1 osa-miR5076 Cleavage 4.5 11.663 1 22
Osa02LNT0140200.1 osa-miR5146 Cleavage 5.0 16.61 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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