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' | 16 5' 3' | 17 5' 3' | 18 5' 3' | 19 5' 3' | 20 5' 3' |
...ttcgcagcagctaggtgcctgccttatctagatgcagttttgctgccagttcaattcgtagttgctttcagctgaccaatcaattatccgtgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATATACCGCACTGCATTGCTCGACATATCACTCAGCAGAAGGATGATACACC
species | Oryza sativa |
transcript | LOC_Os04g09860.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88335917|gb|CI645518.1|CI645518
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88308695|gb|CI653582.1|CI653582
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88338766|gb|CI660537.1|CI660537
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88341777|gb|CI642921.1|CI642921
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88361061|gb|CI646085.1|CI646085
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88377794|gb|CI637928.1|CI637928
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|58601435|gb|CK011963.1|CK011963
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATNGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88346448|gb|CI637294.1|CI637294
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88573821|gb|CI665590.1|CI665590
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88664834|gb|CI701384.1|CI701384
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|29634037|gb|CB639046.1|CB639046
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88726267|gb|CI749922.1|CI749922
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88305179|gb|CI651976.1|CI651976
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88731371|gb|CI754984.1|CI754984
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88330185|gb|CI658490.1|CI658490
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88592435|gb|CI710537.1|CI710537
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88341776|gb|CI642920.1|CI642920
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88717504|gb|CI741014.1|CI741014
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGGGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATGGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|29643625|gb|CB648632.1|CB648632
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|86909359|gb|CI304636.1|CI304636
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88294215|gb|CI667189.1|CI667189
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88328228|gb|CI651236.1|CI651236
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|88574595|gb|CI666364.1|CI666364
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTAATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATAEST: gi|66932263|gb|CX119111.1|CX119111
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
EST: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAG GATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
genomic: ATCACAGCTGATGGCCGAGCGCGGCGCCAACCTCGTCGTCATCAACCCAGgtgcgcccct ... tgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATA
ccagttcaattcgtagttgctttcagctgaccaatcaattatccgtgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATATACCGCACTGCATTGCTCGACATATCACTCAGCAGAAGGATGATACACC
agctgac putative branch site (score: 15)
tgttctct putative PPT
aatcaattat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttcgcagcagctaggtgcctgccttatctagatgcagttttgctgccagttcaattcgtagttgctttcagctgaccaatcaattatccgtgttctctagGATCTTCAAATGTGCGCATTGGGTTCGCAAGTCAGGATGTTCCATTCAATATACCGCACTGCATTGCTCGACATATCACTCAGCAGAAGGATGATACACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - cagcagc
- - - - - - - -tgcctgc
- - - - - - - - - - - - - - - gatgcag
- - - - - - - - - - - - - - - - - - - - tgctgcc