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' |
...atgttatgagtgcagtctagtttcattgtatcttgatccgagcgtcgtacttatggtctacttaaatttgagtgctgatggaagatgtattaaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAGAAGGAATGACCTTTATTGCAAGCATGCATGTTAAAGTTGCCAGGAGAC
species | Oryza sativa |
transcript | LOC_Os01g62440.3 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|58691627|gb|CK080314.1|CK080314
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88666182|gb|CI716338.1|CI716338
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88973217|gb|CI717746.1|CI717746
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88905635|gb|CI712934.1|CI712934
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88973605|gb|CI718033.1|CI718033
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88668065|gb|CI722804.1|CI722804
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|84117186|gb|CD150953.1|CD150953
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88973910|gb|CI718318.1|CI718318
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88670969|gb|CI725085.1|CI725085
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88665660|gb|CI715816.1|CI715816
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88671436|gb|CI725552.1|CI725552
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88667770|gb|CI722509.1|CI722509
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88672844|gb|CI726960.1|CI726960
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88595326|gb|CI714147.1|CI714147
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88673071|gb|CI727186.1|CI727186
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88594904|gb|CI715060.1|CI715060
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88674757|gb|CI728870.1|CI728870
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88972691|gb|CI717417.1|CI717417
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88667581|gb|CI722318.1|CI722318
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88675010|gb|CI729123.1|CI729123
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88672883|gb|CI726999.1|CI726999
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88676179|gb|CI730292.1|CI730292
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88665483|gb|CI715639.1|CI715639
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|89172650|gb|CI721709.1|CI721709
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88670202|gb|CI723723.1|CI723723
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88908927|gb|CI716652.1|CI716652
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTGGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88676890|gb|CI731003.1|CI731003
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88904571|gb|CI711870.1|CI711870
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88667235|gb|CI715393.1|CI715393
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|15847582|gb|BI795872.1|BI795872
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88669369|gb|CI723287.1|CI723287
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88904942|gb|CI712241.1|CI712241
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88972452|gb|CI717192.1|CI717192
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|89172415|gb|CI721474.1|CI721474
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|89171756|gb|CI720815.1|CI720815
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88904358|gb|CI711666.1|CI711666
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAEST: gi|88671281|gb|CI724327.1|CI724327
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
EST: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAG ATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
genomic: AGTTCACCTCCCCTATTCGAAGATATGTTGATCTGCTAGCTCATTATCAGgtaaatatgc ... taaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTA
cgtacttatggtctacttaaatttgagtgctgatggaagatgtattaaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAGAAGGAATGACCTTTATTGCAAGCATGCATGTTAAAGTTGCCAGGAGAC
tgctgat putative branch site (score: 7)
aagatgtattaaatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| atgttatgagtgcagtctagtttcattgtatcttgatccgagcgtcgtacttatggtctacttaaatttgagtgctgatggaagatgtattaaattgcagATAAAGGCTTTTCTTAGAGGTGAATCTCCACCCTATTCAGCTGGTGACCTAGAAGGAATGACCTTTATTGCAAGCATGCATGTTAAAGTTGCCAGGAGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA