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

>Osa01LNT0031900.1

AGTAACAGCTAACAGGTTACAAGTAACAACGCTTTCTATTGGTAAAAAAAAGAGACGGCTTAAACAGATATTCATGCTATTCCAAAAAATATTTCCGATGGTGGTCCGTATGGACACGGTTTGTCATGCTATTCCAAAAAAAAAAATTACTTGCCAATGGTATGGACTCCTGTCAGATCACCTCAGATTTGCATACTGGGCATGAAATCCTCATCCGAAGCCATTTGTCAATGCACTCTTTATGAAATTTATGCAGGCACGGTAAACGCCGGAGGTATTCACCAGCAGCAGGGCAATCCAGGCATATAGGACAGGGTTCATCAGAACAACTCTCTCCCTCAACTACAGATAGTGGCAGGTTGTTTATTTGAATGTCAGAAGCACCCCTGTGATGGTTGTTGTCATCAAGTCTTATTAGGCTCTCATAGTCATCATCATCAGATTCTGACATAAATTCCTCTCCGAAGTTTCCAAATGCTTCTTCGAGTGAATCCAGTATTGCCATGCGCGTTTCTAGATCCATGTTTTCATCTCTGAAGCATCCTCTAGTCAATTGGGAGATAAGCATATTCTGTTGCTCTCTGTCAGGGCGGTTGAAGCTTCTTTGCGAACCCCTTCTGCTTGGAATTGGAGTCAGAACATTGATACTGTGAACTGGTGAGTGCCGGCCAAATGAATACAAGTGTGCCATTGAACGGTCCCTTTGGCTAGAGCTAGATTGGCCCTCTCTGACAGCATTTCTAGCGTGTTCCACATCTTCCTCTTGCAATGTCCAGGCTAGTGTTGTATCAACCTCTTCTAAGTTTTGCGAGCCTGGCTGCTCCTTGTTTAACTGCTCCTGAAGCCTGCGTGCAAACTCCTCATCGGATTCAATTTGTCTGGTTCTTAACTGATTCTCATCAAGAAGTGGGTAGTTGAGCCCCTTGATCCTCGATAGCCATGTGGAGCTACCATCTTCCATGGAAACATCACCAGCTCCAGTAACTTCATTAGTGGCTACAGAGCTTGGTTCATGCATTGGAACCTCATCTTCTCTCTTGCCATTGTCCCGCGAATGCGACAGTTTGTCGACAGCAGGATCAGCGGGCCTCGCACCAAGAATCCCCTTCCACTTGTCATCCGGCGTGCCGGAACCACTGTGAAGCAGCCCGTGCTGTCCATGTCCCTCCTGCAACCCCTTGCTGTCTGATTCATCCTGAGGCGCGGAGATTGATCCGCCATTTCCCCCATCTCCAGGCTTGCTTTCGCCTCCCGCTCCCAATGTACAGCCACGGGAGCCGATCAAAGGATCAACAGGCGCCGACACCGCTCTCTCCAGCATCTCCCCCTCGCCGACCTTCTCCTTGCCCTTCTTCACTTCCTGGCTCGGCGGCGGATGCGGATGCGGATGCCGATGCAGCAGCCTCGCCATCCTCTCCCGCTCGAGGAAGCTCTCCGACTCGGTTCTTGGATCCGCCTCGCAGGCAGCGCGCTTCCGATCGGGCGAGTGCACGCGCGCCTCGTCCTCTTCCTCGGACTCGGAGTCGGACGAGACCAGATCAACCACCTCCATTCCACCCGCGACCTCCTCTTTCCTCCCCTCCTCCCCGCTTTTCCCTCGCTCGCCCGTGCACACCCCACCCCTCGCGCTGCCGCGTCGCCGGCCGCCGACCCGCCCCTGCTCGCCGCGGCCCAGGTCGCCGACCGCCTCTGCTTTATTGCGCCGTCGGGGTACGTGTCGCTCCTTCGCGTCTCGCTCGCGGAGGAATCTGGGGATGGGGGCGGCGTGAGAGAGGGGTTCCTCTCCGGTGGAAGCCGGGGGGAGACGTGGCAGAGAGGGAGGAGGAAAAATAGAAG

Coding Potentia
Explanation CPC Score
noncoding -1.27686
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0031900.1 1 27682732 A G
Osa01LNT0031900.1 1 27683248 C T
Osa01LNT0031900.1 1 27683309 C T
Osa01LNT0031900.1 1 27684139 A 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
Osa01LNT0031900.1 osa-miR5534a Cleavage 5.0 22.055 1 21
Osa01LNT0031900.1 osa-miR5534b Cleavage 4.5 22.055 1 21
Osa01LNT0031900.1 osa-miR5814 Cleavage 5.0 12.334 1 24
Osa01LNT0031900.1 osa-miR5819 Cleavage 4.5 14.341 1 21
Osa01LNT0031900.1 osa-miR169q Translation 4.0 18.155 1 21
Osa01LNT0031900.1 osa-miR528-5p Translation 4.5 18.03 1 21
Osa01LNT0031900.1 osa-miR1426 Cleavage 5.0 18.306 1 21
Osa01LNT0031900.1 osa-miR1439 Translation 3.5 7.994 1 21
Osa01LNT0031900.1 osa-miR2867-3p Translation 4.5 19.165 1 20
Osa01LNT0031900.1 osa-miR2919 Cleavage 4.0 3.815 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0031900.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0031900.1 1 yld1.1 Physiological trait Source activity RM5 RG462
Osa01LNT0031900.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0031900.1 1 nan Morphological trait Seed CDO118 CDO455
Osa01LNT0031900.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0031900.1 1 QPh1b Resistance or Tolerance Submergency tolerance RZ527 RZ154
Osa01LNT0031900.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0031900.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
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