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

>Osa04LNT0261400.1

TTATTGGCATACCGGGCTACTCATTCCAATATGTGATTCATATATCCGCAGCGAATTTGGTCGTTTAGGTTGAGGATGTTGGAATACATATTTTTCTTCTTCAGGTGGATCATAATATATACCGTTGTACGGTATTTCACCTGGAGCCTGCACAGCAAACTTAATCCAGGCAGGAATTGAATCCTTTACGCCAGATGGTGTATCCATCCGAATCTTTACACGTGAGCCATGAGGAATAGCAGGGGATCCATCAGCATTGTTAGGCAGGGAAATCTCCCAAACACCATACTCATTTCTGGTCATAGTATCTGCATTTGGGTTCCAATTGTTGAAGTCACCTACTAATGCTGCAGACTGTGCTCCAGGTGCCCATTCTCGGTAGGTAATGCCTTCAGCGCTGCGGGTGAATCCAAGCTTTTCGTAACCACGAGAAAATGCATCCAAGCCACCTTCATGTTGGTCAATAGCTGCACGCATTCTCTTGTATTCACTGTATCGGTAGTCAAGATGGTTCCGAAATCCTTCCAGCATTGGGTCAATTTGGTATATCTTCTGCCCATCTCCTGGTGGTGGGATAACTCGTGGTTTATCCTCCACAGTTGGTTCATCAGCATCTTTGATCACACCCTCAGTCACATTTTCCTCAATGTCTTGAATCACTTCTGAAGATTCAAGTTTGTCTTCAGCCACAACCTTTATGCTTGCTTCTGCCACTGCTGGAATCTCTTCCTCCTCCTCAAAAGGTTTTACTTTATTATCATCAGGTATCTGAGATTCTTCAGGTTGCTCTTGAGTTTCCACGTCTGGTTCCGCAGAGGACAGCAAGTCGTCGCTCCCACCGCCAGGCACCAGCACCTTCCCAGGAGCACCCGCGCAGCTCACAACGCCACGTGAGAAGGAGTCCTTCCTCCTGAAGAGCACCGACGGCAAGTCCACCCCGCCGGATCGCGCCGCCGGGCCACCCCCGCCGCCGCCGCCGCCCCCCGCCCGCA

Coding Potentia
Explanation CPC Score
noncoding -1.05815
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0261400.1 4 20240317 A G
Osa04LNT0261400.1 4 20241260 T C
Osa04LNT0261400.1 4 20241306 G A
Osa04LNT0261400.1 4 20241673 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
Osa04LNT0261400.1 osa-miR166k-5p Translation 5.0 24.864 1 21
Osa04LNT0261400.1 osa-miR395w Cleavage 4.0 18.551 1 22
Osa04LNT0261400.1 osa-miR1425-5p Cleavage 4.0 23.395 1 21
Osa04LNT0261400.1 osa-miR1853-5p Cleavage 5.0 18.204 1 24
Osa04LNT0261400.1 osa-miR2929 Cleavage 5.0 12.931 1 21
Osa04LNT0261400.1 osa-miR5525 Cleavage 5.0 21.944 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0261400.1 4 qNOT4-2 Resistance or Tolerance Drought tolerance RG449 RG788
Osa04LNT0261400.1 4 qFRP4-1 Physiological trait Source activity RG449 RG788
Osa04LNT0261400.1 4 nan Morphological trait Root RG449 RG788
Osa04LNT0261400.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0261400.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0261400.1 4 nan Morphological trait Panicle/flower RG788 RZ69
Osa04LNT0261400.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0261400.1 4 gwt4a Morphological trait Seed RG788 RG190
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