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

>Osa03LNT0210400.1

GGAGCGAAATACATCTTTCTGCAAGGTTTATGAATATGTTACAGTACATTTAGCCCAAAACACAGTTAAATACGACGATGCAACAGCTTATACAAACATGTCTATGCTCTAGGCTTGAATAATCAGCAAAAGTCTGAGCGGCTAGAAAATGTATTACAACATATTAGCCAAAATTCCTCCTGAATTTACTTCGTACCTTTCTCAGGCAAGCATTAGTCGACTCAATTCAAACTATGATCCTACAGGGTATATGCTAAATATGGAATTATCCAAGTTTTCCGATCTCCATCTTTTTCTTTATAGCACGATGACCATGGTAGACAAAAGAATCTATGATGCCAGCAACAGTGAAAATCCCTCCAACAATAGCACATATGTTTGTCAGGAAGTGAAGAAGCGATGTATTTTCTTCAGTAAAATCAACCTTAATTGGAGAAAATTCATAGAAGAAATATACACCAGGCGGAGGCCTGGGATAGCCAATTGCTTCTCTAAAGTGCTCCGTCACAGAAAACTGATTTGAGTTGATTTTCCGTCCTCTAATGTCGGTATAGATTGTGGGAACAACCTTGACAAAGTATTGGTACATTCCTGTTAATCCATTTGTGTGCTCCTGTATCCACTCTACACCATCAAGAGGATTGACAACACCAGGGAATTCTACCCCAAAGGAAAGCTTGTTTATCTTGTGACTTATATTGTAATTTTCTTGTTGGAAGTTCAAGAGATCTTGAAGGAAGTTGAATGATTGGTCCAAGCTTTTCCCAGGGGCAAAGTGAAAATTTCCAGCTACTTTGTTGACATTTACAAATCCATGAATGCTGCAACCTTCTCCTTGTTCATCTTTTAACCTTTGAACAAAGCCCTCTCGCTTACACTGATCAATCTCTTCTATATTGGTGAGTGCCCACCCTTTTTTCCGATAGGCATCACGGACGTCTTCACAGGAGTTACAGCACTGATCATCTGACTCTTCAGAACCATAACAAGATCCACAGTAAACTTCGTTGTGGTCAAGTCTTCCACCATGTTTCTGCAGTGGTCTTTCAATCTTAGGGGCACCAACTCCATCTTTTCTTGATTCAATTACATTACCAAGATTATCAATTCTTTTCTTTATTATGTCATGTCTTATATCATAGTGCTGCTCTCCACTGACATCCATTGTATCAACAGCAACAAGTGAACAAGGAAGAGCTGGGAACGTAACATCAAAATTGATGTGTAGCCTTTCCCCTCTTGAGGTATCGACTGTGAGCTTACTATCTGTAGCAGAATATAGATACAGCCGGATCTCGGAGAGGAAGAGGAGGAGGATGGCGAGCGAGGAGGCGATGGTGATGAGGCCGCCGGAGAGGGTGCGGCTGTAGAAGTCCTCGTTCACCTTGGGGTAGGCGTCGAGGCTCCGCAGCTTGTTCCACAGATCCATCGCGTTCTGGCTTCCCCTGCCGGCGACGCCGCCGGAGCCGCCCAGGACGAGGAGGAGGAGGAGGGAGATCTGCCGCGAAGCCGTGGGGTGGCCCCGTCCGTTGGCCCGCCGCGAGGGATATGGGAGGGTGTTTCTGGAATTTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.713304
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0210400.1 3 11626445 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
Osa03LNT0210400.1 osa-miR5803 Cleavage 5.0 18.507 1 24
Osa03LNT0210400.1 osa-miR5816 Cleavage 4.0 13.357 1 24
Osa03LNT0210400.1 osa-miR438 Translation 4.5 16.411 1 21
Osa03LNT0210400.1 osa-miR2099-5p Cleavage 3.5 13.357 1 22
Osa03LNT0210400.1 osa-miR2275a Cleavage 4.0 21.994 1 22
Osa03LNT0210400.1 osa-miR2275b Cleavage 4.0 21.994 1 22
Osa03LNT0210400.1 osa-miR5144-5p Translation 4.0 13.301 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0210400.1 3 nan Physiological trait Eating quality RZ574 RZ284
Osa03LNT0210400.1 3 qBM-3 Physiological trait Source activity RG369 RG745
Osa03LNT0210400.1 3 qGY-3 Morphological trait Seed RG369 RG745
Osa03LNT0210400.1 3 nan Morphological trait Seed RM251 RM554
Osa03LNT0210400.1 3 nan Morphological trait Seed RM251 RM554
Osa03LNT0210400.1 3 qLVG3 Resistance or Tolerance Cold tolerance RM251 RM282
Osa03LNT0210400.1 3 ccs3 Physiological trait Source activity RM282 RM251
Osa03LNT0210400.1 3 dcf3 Physiological trait Source activity RM282 RM251
Osa03LNT0210400.1 3 qLEI3 Resistance or Tolerance Submergency tolerance RM7249 RM3803
Osa03LNT0210400.1 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0210400.1 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0210400.1 3 qLEI3 Resistance or Tolerance Submergency tolerance nan nan
Osa03LNT0210400.1 3 qGL3-1 Physiological trait Eating quality nan nan
Osa03LNT0210400.1 3 qOE3-1 Physiological trait Eating quality nan nan
Osa03LNT0210400.1 3 qTA3 Physiological trait Eating quality nan nan
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