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

>Osa01LNT0002600.1

CACTTCCCAGTCCGGCAGTCCCTACCTCCCCTGGCTCCCTTCTCTATGGCCGGAGGCCCAATCTCCAGCACGGAAACATGGTTCGTCGCCTCTTCCTCCTCCTCATTGTCACGTCGCGGGATGCAACATGATGCTGTAGCAGCAATGCGACGAAAAAGTTCAGCGAGCTCGCCGCCTCCTGCAAGTGGAACCTTCCCTGGCTAAGAAGGAGGAAGGAAGGTGGGAAGTGGAGAGGAGAGAGAAAGGGAAAGTTTGGCACTCTGCACTTGAGCTCAGGTAGAAGATGACTACGTTAAAATTCGTGTGGAGACGTGTCACTCAAGATGACAAGTCTTTCTGGATGAGCGAAGGACCGAGGTCTTGTATAATTTTCTTCCGCGGGCGGCGGCTACGGCCATGGAGATCTCGCGACTCGCGGGTCGCGGCCATGTGCCGGTGAGGTCGGCTGCTTCGCCGGCGTCTCCGCCTCCGCATCTACGCCTGATTGATCCCCCCCAACCTATCTCCACTGTGCTATCGCGTTTCTTGCGGACTTGCGGAGGTTGTGGTTGAGGCAGTAGCCTGTGGGGCGGTGATGCGGCGCCGAGATCCCGCTCGTCCACGGATTTCCGGTCGCCATCGCCGGGATTCGTCTTCTCCGGCCAACCCCTCGCCGCGCCGCCCGTCCTCGGCCAGGATCTGGTCGGGATCGCTTGTGGATGAATAGCGGCATGGCAACCCAAGGGCCAAGGCCAGAGCACTAGGGCCTAGAGCCGCAGGAGTGGAGCTAGAGCGAAACAGAGGGTGGTGCCACTTGCTTAATTTACTCTACTTTAGATCAAGTTTAAGCTGATACGGGTGCTTAAGTTTGTATTGAGGAGGGTGCATACATGGTGAAAATAGGGGGACGTTGAGTTGTAAGAACTAAGAAGACCAGATGCATCTGCTCAGATTTTACAGGCCTGTATAACCAGTTAACGAGTGGCAAAAAAAATGTCTCGCGGCCGTGTCTGATACATAACTTTGCCAGGAGATCTATCTGTTGATGCACACAGGCTGCCATGGCATTGTTACCCAGTTGCTCTTACATGCATTTCTGCTGGCATAAGATGGTGGAGGTTCTGTTGTTGAACCTGGAACACAACCGGTGCTCAGAAGAATTTTGTATCACTACAACCTATCAGGATTTGATCGAACAATTTGGTATGTTCATACACATTTGAGCAATTGTACAGTACTCCGAAGTTGGTGTTTTCTATCATCTGGTAATTGTGGATCACTGGCATATCGAGGAATTGTGGATCACTGACATATGGAGGAATTGTGGATCACTGGCATATTGAGGAATCAACCTGACATATAATATTCAGGGTGTCTTTTGTATACGTGGAGACTGTTGTGTATGCCATTTTTCTGGAATGTCATGTAATATCAACGTATCCGTATCGCCGTACCAGTATCACGTATCCGTGCATCACAAATAGCCATATTATTTTCTATATCGAT

Coding Potentia
Explanation CPC Score
noncoding -1.28185
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0002600.1 1 2416187 A G
Osa01LNT0002600.1 1 2416276 A C
Osa01LNT0002600.1 1 2416422 G C
Osa01LNT0002600.1 1 2416425 T A
Osa01LNT0002600.1 1 2416437 C T
Osa01LNT0002600.1 1 2416691 C T
Osa01LNT0002600.1 1 2416849 T G
Osa01LNT0002600.1 1 2417026 A 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
Osa01LNT0002600.1 osa-miR5816 Translation 3.5 18.024 1 24
Osa01LNT0002600.1 osa-miR1849 Translation 5.0 15.969 1 21
Osa01LNT0002600.1 osa-miR2097-3p Cleavage 4.5 22.69 1 22
Osa01LNT0002600.1 osa-miR1863c Translation 4.5 19.376 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0002600.1 1 gp1a Morphological trait Panicle/flower RM1 R753
Osa01LNT0002600.1 1 nan Physiological trait Source activity RG532 RG472
Osa01LNT0002600.1 1 qFLL-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0002600.1 1 qFLP-1 Morphological trait Culm/leaf RZ543 RG532
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