Sequence
atgc intronic sequence ATGC exonic sequencegtttgtttagtcggtagtaattctgatctgcagttgtttttgcatttcttaactgattctaaatttaaaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g51690.1 (Oryza sativa), 3'ss of exon 3
gtttgtttagtcggtagtaattctgatctgcagttgtttttgcatttcttaactgattctaaatttaaaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
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gtttgtttagtcaacatt--ctgttatttcta-ttgcccttctaa--cttatctgagtg-agctctgaagtgtcttctgtatttttctttgttcaaattattttccagCCACAATCAAAGAATGGTGTCAATAGCTTTGGTGGTCTCGGGGCAACTCTTGTGGACTCACTTGATACACTGTATATAATGGGCCTAAAGGATGAATTTC
upper sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 3
gtttgtttagtcggtagtaattctgatctgcagttgtttttgcatttcttaactgattctaaattta--aaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
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atgataaaaattggt--ttgtttttcgtaaaaataattattttatttgttctttaaatttacattttttaaaaattaattgttatctttttggtgc--------taccagCCACAATCAAAGAATGGTGTCAATAGCTTTGGAGGTCTTGGAGCAACTTTAATAGATTCTCTTGATACACTATATATTATGGGTCTCAACGAACAGTTTC
upper sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 2
gtttgtttagtcggtagtaattctgatctgcagttgttt-ttgcatttcttaactgattctaaatttaaaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
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------taaaatattggtttctttctcgtaaaaataattattttatttgttctttaaatttacattttttaaaaattaatcgttattttttttttggt---gctaccagCCACAATCAAAGAATGGTGTCAATAGCTTTGGAGGTCTTGGAGCAACTTTAATAGATTCTCTTGATACGCTATATATTATGGGTCTCAATGAACAGTTTC
upper sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 3
gtttgtttagtcggtagtaattctgat-ctgcagttgtttttgcatttcttaactgattctaaatttaaaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
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-attcctagatttgtggcatttgtatttccatagtgtttatgatgttgtttcattttatccaagttctacaactaacatg-caattgtttttt---ccttaa----cagCCACAATCCAAGAATGGTGTCAATAGTTTTGGAGGTCTTGGAGCAACATTAATAGATTCTCTTGATACATTATATATAATGGGACTAGATGAGCAGTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattctaaatttaaaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
ttctaaa putative branch site (score: 2)
tcttctgtcttttgct putative PPT
taaatttaaaatgtct TA-rich tract
Putative cis-regulatory sequences
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtttagtcggtagtaattctgatctgcagttgtttttgcatttcttaactgattctaaatttaaaatgtcttctgtcttttgctttgttcacctcaattcccagCCACAATCGAAGGATGGCATCAATAGTTTTGGTGGTCTTGGAGCAACCCTTGTTGACTCACTTGATACACTGTATATAATGGGCCTGAAAGATGAATTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG