1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' | 9 5' 3' | 10 5' 3' | 11 5' 3' | 12 5' 3' | 13 5' 3' | 14 5' 3' | 15 5' 3' |
...ttccgttataagtaatcatgtattcatgttaactgaaaatttgtctggcgatattccacacctattgacttgaagtaattctttactttttattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCGCGGTTGGCAGGTGAATGGCGGTGACCCATGTGGCGCCTCATGGCAGGG
species | Oryza sativa |
transcript | LOC_Os10g25090.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88311529|gb|CI572585.1|CI572585
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCAACAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|86888413|gb|CI303695.1|CI303695
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCCATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88449338|gb|CI582210.1|CI582210
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88730221|gb|CI753836.1|CI753836
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88385785|gb|CI566647.1|CI566647
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: ATGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88406193|gb|CI593973.1|CI593973
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|6507597|gb|AU064258.2|AU064258
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88298922|gb|CI567925.1|CI567925
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88720186|gb|CI743485.1|CI743485
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGAACACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88298740|gb|CI565937.1|CI565937
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88371283|gb|CI600131.1|CI600131
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGAACACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88314468|gb|CI604952.1|CI604952
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88422824|gb|CI573986.1|CI573986
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88428401|gb|CI564869.1|CI564869
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88392563|gb|CI625385.1|CI625385
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88721915|gb|CI743427.1|CI743427
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88425544|gb|CI569268.1|CI569268
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88395348|gb|CI611265.1|CI611265
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88385459|gb|CI564119.1|CI564119
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88402885|gb|CI613333.1|CI613333
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTACTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88368294|gb|CI577565.1|CI577565
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88300565|gb|CI587369.1|CI587369
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88401962|gb|CI593674.1|CI593674
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TGGACCCAGCGGCGAATCTTGGTTTGCTGCGACCACTGACGCCAATGATG TTACTTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGEST: gi|88405784|gb|CI609683.1|CI609683
genomic: TGGACCCAGCGGCGAATCTTGG-TTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTAC-TGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTG
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|29631005|gb|CB636014.1|CB636014
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: GCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88430712|gb|CI596826.1|CI596826
genomic: GCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88412193|gb|CI573469.1|CI573469
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88415116|gb|CI583939.1|CI583939
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88396144|gb|CI595692.1|CI595692
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88426869|gb|CI584232.1|CI584232
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCEST: gi|88314779|gb|CI608238.1|CI608238
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
EST: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATG TTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
genomic: TTGGACCCAGCGGCGAATCTTGGTTGCTGCGACCACTGACGCCAATGATGgtgagctgct ... tattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGC
tggcgatattccacacctattgacttgaagtaattctttactttttattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCGCGGTTGGCAGGTGAATGGCGGTGACCCATGTGGCGCCTCATGGCAGGG
tattgac putative branch site (score: 6)
ttctttactttttatt putative PPT
ttgaagtaattcttta TA-rich tract
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttccgttataagtaatcatgtattcatgttaactgaaaatttgtctggcgatattccacacctattgacttgaagtaattctttactttttattatgcagTTACTGTCCTCAATGCGCTATTCACCAGCCTCAATTCGCCGGGGCAGCTGCGCGGTTGGCAGGTGAATGGCGGTGACCCATGTGGCGCCTCATGGCAGGG
- - - - - - - atcatgt
- - - - - - - - - - -attcatg
- - - - - - - - - - - - - - - - - - - - -tgtctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - tccacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacttg