\
RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa03LNT0202000.1

ATGCACTATAACAGTCGTCATCTTCAAGGCTTAAGAAAAGAGGCAATGGAATTGTCTTCCAACGTGGTAACATCAGTATCACATCTTGTACTTGAACTTTCAAGTTTGAAGTGAAGATTACGAGTGCTCACTGCTCAGTCTTGTAACCTCATCCTATCAGTGATGTCTGTGTGAAGCAACTCCACTGTTAGGTTGGTGAAGCAGCAAGCAACATCCACAGAATTTGGATTGAACTCATTTCAATAACAGAGCAGGACAATGAATTTAACTCAAGGTAAAGGTTGCGATGTTGAAAAGACCCGTCACACCAAGAAAAGCCACTGCACCGCAGCAAGTCAATCAAATAAACAGTTGTAGGACCTGCCCATTGATAGGCCCTGAAGCAGATGGTTGCATAAACACATATGATTCATCAATAGTCAGTCAGTCACGGAGGTAGCTATTTCTTCGAATACTCCTATTTTAGCAATGGTAACAATCTTTCTCCTTAGAAGTTTGCTCATTGCCGTACCATCAACTTGACAGCATATTTTTTAACATACAAATGCGGTGGCTCTCTAAAGCACTGTGAACTGGAATTGCCCTCGTTGATATTGTCCTACTAAACAATACATCATATAACATAGCGAATAAAATGGAAAGAAAGTTAGCAACCCTAAAAGGTGGTAAATGCAATCTCAAATGCAAAACAAAGCAGGATGGTAGGGTCTGATGGCTGCTTATCTGCTAGTACCATGAAAGGGGAAAAAAAGTGAACTTAAGGAATGGTTATCATAAAATCTAAAACACATATAGTGCAACCGTCTATGTTGTTTGGTATAAGCATCGTCTTGAAAGCAAGGTGAAAAACAATGAATCGATAATACTATGAGATGACAAGTGAGATGGCACCAAATATCAAGTGCAAAAATGAAATATAAGCTGGCTGATTAGTACTCCTAGATCAATGAAAAAGAGAAGAGGTACATTTCCTTCCTTAAAATAAACCAGCCTTGTCTGCATATATGTATTCGTTGAATCAAATGTACAAACATTATATAGATTAGATAACATGTTGATTCATTTTATTTAATATCATACACTTACCTCATGGATGATATGAAGGGCACAACTCATTTACTTGGCAAAATGGCAGGAATATGTATATAGCAAAGGATATAGCAATTTTTTAGGAGATACCAAAGGATTTAACATACCAGCATGTATGTTGTAAGATTAGTAGTTTACCCATAAAGATTAGTACTCCCTCCGTTTCACAATGTAAGTCATTCTAGCATTTCCCACATTCATATTGATGTTAATGAATCTAGACATGTATATTTATCTAGATTCAATAACATCAATATGAATGTGGGAAATGCTAGAATGACTAACATTGTGAAACGGAGGAAGTATATAGTTTACACTTAAAGATTAGTACCTATGTAATTTACCCAAAAAAGGTTAAATTAGTATGCACAGAAAGATCCAGGACATGAATCTGAATCAGCATACCACAAAAACATATGGCATTAAAGTTGCCAAATGTTGCTGGAATACATGATCCGGTACAAATATAACAATAAGTTAGGTAGTGGAGCTATGTGTCACTTGACTAACAATTGTGCAATGCATTTTTAGCTCTAAAGGGAATGAGATAGATGGTATTAGTAGACAAACAGTCATTCGAGGTTTATAGTATGAAGATATCAATAGTTTAGCAATAAAAAATGATCAGGATATGTGCTAGAAGAGACCATGAATATGCAGTATGCTGTTCTTACTGAATTCATGTGTTTCACCTTCGATGGAGTGGCACAGACCGAGGCAGTTTGATCACAGGTGAAATTAATTATTTAAGATGCACAAGGTATGTAGAATAAACCTTCAACTTTAAAACTGGACCACAGAAGCAGTGACAATTAATCCATATATGAATACTCCTATACAGAGAGGTGGGAAACAAGGGAAATTTGAAGTATAAATGTATGCCTACGAAGGAGTGGACAATAACGAAGAAAGATGCACCTATTGAACGGGACACTTGTAGAATTTATATTAGCTTCAGAGAAATCTTGATTGTTTGGTGAGACAGCGACCGGCGGCAAGCAGCGGCAGCGCGGGAAGCGGTGGAGGGAGGTGGGGAGAGGGAGTGGAGGCTCACCGAGCGTGCGGGCCAGTGAGGCGGAGAGGGGGGGTGGCCAATGGCGGGGATGAGGCGGTGGCGCTCCTCGGGGAGGCGGCGCGGATGGCGGTCCGACGGCTTCCGGCGAAGGTGGAGGGGCGGCCGAGGAGCAGCGCGACCTGAGAAAGATGATGGGGAAGTTAGGGAGAGAGGAGGATGCGCGGCGAGGAACGCCGGCCGGAGGGAGGGGGAAATGGAGAAGCTCAGCGGCGGGCGAGGGAGATGGGGCTCCGGCGGTGTTCTGGCGACGTGGAGCGGCGGCAGGGCTGCGGTGGGGCGGCGACGCTGTTGGAGGCGGCAGCACGGCCGGGCGAGGCTTCTCTCATCGGCGGGGAGCGGCTGGAGGCGGCGGCTCGGGTTACGTGGCGAAGGCGGCGTTTAGGTGGCGATAGAGGGAAATGGAGTAAGGGCCGGGATAGAGCTCGGCGCGGCGATGCTGACGGTGCAAGCGGAGCGGCTCGGCGGCGGTTAGGGCGGCGGCGGCGCGTGGCCGGAGTGCGGCGGAGAAAGAGAGCACGGTGGGGAGGTGGTTTCTATGCGCGGGAGGTCGGGAGGAGGGGAAAAACGGTGAAGGGAGCATATGGGTAGTATTTTTTTTGGGCCGGGAGGCCGAGATCGAGGCGAGGCGGCGGGCGCGAAGCTCCGGTCTTCGCGGAGGTCGTGGGGGTGGTGCGCCGCCGGATTCCGCGGGTAGAGTGGGGAACGACGTGGAGGAGGTGGAGAGCGCAGATTTGGCCGCGACGTGGGGCGGTG

Coding Potentia
Explanation CPC Score
noncoding -1.31306
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0202000.1 osa-miR5537 Cleavage 4.5 12.692 1 22
Osa03LNT0202000.1 osa-miR5816 Cleavage 4.0 16.107 1 24
Osa03LNT0202000.1 osa-miR5818 Cleavage 4.5 20.201 1 21
Osa03LNT0202000.1 osa-miR5516b Cleavage 5.0 12.332 1 21
Osa03LNT0202000.1 osa-miR1436 Cleavage 2.5 9.693 1 21
Osa03LNT0202000.1 osa-miR1442 Cleavage 5.0 15.247 1 20
Osa03LNT0202000.1 osa-miR1439 Cleavage 3.0 8.208 1 21
Osa03LNT0202000.1 osa-miR1862a Cleavage 1.5 13.855 1 24
Osa03LNT0202000.1 osa-miR1862b Cleavage 1.5 13.855 1 24
Osa03LNT0202000.1 osa-miR1862c Cleavage 1.5 13.855 1 24
Osa03LNT0202000.1 osa-miR1862d Translation 3.5 13.855 1 24
Osa03LNT0202000.1 osa-miR2095-5p Cleavage 5.0 12.283 1 22
Osa03LNT0202000.1 osa-miR2871a-3p Translation 5.0 10.936 1 21
Osa03LNT0202000.1 osa-miR2871a-3p Translation 5.0 6.144 1 21
Osa03LNT0202000.1 osa-miR2871b Translation 5.0 10.936 1 21
Osa03LNT0202000.1 osa-miR2871b Translation 5.0 6.144 1 21
Osa03LNT0202000.1 osa-miR1862f Cleavage 2.0 13.855 1 20
Osa03LNT0202000.1 osa-miR1862g Cleavage 2.0 13.855 1 20
Osa03LNT0202000.1 osa-miR2873b Translation 3.5 11.011 1 21
Osa03LNT0202000.1 osa-miR5152-3p Translation 4.5 19.896 1 21
Osa03LNT0202000.1 osa-miR5159 Cleavage 5.0 10.092 1 24
Osa03LNT0202000.1 osa-miR5516a Cleavage 5.0 12.332 1 21
Osa03LNT0202000.1 osa-miR5523 Translation 4.0 13.118 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0202000.1 3 qTAA3-1 Morphological trait Shoot/Seedling C316 C63
Osa03LNT0202000.1 3 Rhz2 Others Others OSR13 OSR16
Osa03LNT0202000.1 3 S34(t) Physiological trait Sterility nan nan
Osa03LNT0202000.1 3 qOE3-1 Physiological trait Eating quality nan nan
Osa03LNT0202000.1 3 qTA3 Physiological trait Eating quality nan nan
Osa03LNT0202000.1 3 qTNL-3 Morphological trait Culm/leaf C563 R518
Osa03LNT0202000.1 3 Gy3a Others Others RG266 C63
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