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...ttctgtagccgtaaattccattggtttttgtccatacgacattttatttcaaaatagactttgacttcattattgtgcctgctatgctttatttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTGTTGCTGATGGTGGTGAATTGCTCATGGCTCAGAGCTACGCTAAGAACA
species | Oryza sativa |
transcript | LOC_Os01g55540.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|218483847|gb|FG951547.1|FG951547
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|116874986|gb|EC365494.1|EC365494
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|218496561|gb|FG955449.1|FG955449
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|428293|gb|D24441.1|D24441
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|58596195|gb|CK006723.1|CK006723
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|29639571|gb|CB644580.1|CB644580
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCEST: gi|218496988|gb|FG950831.1|FG950831
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGC
EST: CCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|218485004|gb|FG945494.1|FG945494
genomic: CCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|218495829|gb|FG948903.1|FG948903
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|33793733|gb|CF322749.1|CF322749
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|218491933|gb|FG950038.1|FG950038
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|396941430|gb|HO188639.1|HO188639
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|425866|gb|D22544.1|D22544
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGEST: gi|163926589|gb|EG713605.1|EG713605
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAG
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|218481458|gb|FG955103.1|FG955103
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: GGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCCAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|58612361|gb|CK040073.1|CK040073
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: GTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGG GGA-TTGGAGAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTEST: gi|33680310|gb|CF308549.1|CF308549
genomic: GTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCA-Ggtaaattatt ... atttgttcagGGATTTGCA-AGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|33678676|gb|CF306915.1|CF306915
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGEST: gi|218487158|gb|FG950553.1|FG950553
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATG
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|58664098|gb|CK052784.1|CK052784
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|14571421|gb|BI118789.1|BI118789
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTEST: gi|2443117|gb|C74888.1|C74888
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
EST: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAG GGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
genomic: AGTTGATGAGATCAAAAGCATTGCTGCCATTCTTTGATAGCGCTTATCAGgtaaattatt ... atttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTT
atttcaaaatagactttgacttcattattgtgcctgctatgctttatttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTGTTGCTGATGGTGGTGAATTGCTCATGGCTCAGAGCTACGCTAAGAACA
ctttgac putative branch site (score: 4)
ctttattt putative PPT
tttatttgtt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttctgtagccgtaaattccattggtttttgtccatacgacattttatttcaaaatagactttgacttcattattgtgcctgctatgctttatttgttcagGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTGTTGCTGATGGTGGTGAATTGCTCATGGCTCAGAGCTACGCTAAGAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC