Sequence
atgc intronic sequence ATGC exonic sequence...tctgttgaatatccacaactgcttgcacccatgaatctcgagtatatggataccatttcactccattatcgtaactgctctgcctacttgatttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g06750.1 (Oryza sativa), 3'ss of exon 3
tctgttgaatatccacaactgcttgcacccatgaatctcgagt--atatggatac-catttcactccattatcgtaactgctctgcctacttgat-ttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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--tggcctttagccaagact--ttaatactaagactttagtattcatctgaatatgcatactactgaagagatttaaccttgtcatttttctaatgcttttcagAACTCCACAAGAAGGAGACCTGTGAGGCTGTTACCATTATTGAGACACCTCCTATTGTCGTTGTTGGACTTGTGGCCTATGTGAAGACTCCACGTGGCTT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G30810.1 (Glycine max), 3'ss of exon 3
----------tctgttgaatatccacaactgcttgcacccatgaatctcgagtatatggataccatttcactccattatcgtaactgctctgcctacttgatttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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aagctaatgatgtattgcat-tctttaactgtttacatgtaacgttctcttat---tatatactatc---ctttatctatctaactatataatattttctatatc---agAGCTTCACAAGAAGGAAACATGTGAGCCTGTTACAATTATTGAGACCCCTCCAATGGTTATTGTTGGTGTTGTGGGTTATGTGAAAACTCCCCGTGGTCT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G36780.1 (Glycine max), 3'ss of exon 3
tctgttgaatatccacaactgcttgcacc----catgaatctcgagtata-tggataccatttcactccattatcgtaactgctctgcctacttgatttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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tgaagctaatagtattgaattctttaactattacatgaaactttctcttacttgttatagcatcatttaattatc-taactatatttcttttttatat----cagAGCTTCACAAGAAGGAAACTTGTGAGCCTGTTACAATTATTGAGACCCCTCCAATGGTTATTGTTGGTGTTGTGGGTTATGTGAAAACTCCACGTGGTCT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 3
lower sequence: AT1G43170.7 (Arabidopsis thaliana), 3'ss of exon 3
tctgttgaatatccacaactgcttgcacccatgaatctcgagtatatggataccatttcactccattatcgtaactgctctgcctacttgat-ttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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------gtaagtgaacttgtgttt-ttttcattctgatttgttttgtggaggtttttgcgatttaaagtcgt--caactttgtgtttttattgttgtgtagAGCTTCACAAGAAGGAGACATGTGAGGCTGTTACCATCATTGAGACACCTGCTATGGTGGTTGTTGGAGTTGTTGCCTATGTGAAGACTCCTAGAGGTTT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 3
lower sequence: AT1G43170.4 (Arabidopsis thaliana), 3'ss of exon 1
tctgttgaatatccacaactgcttgcacccatgaatctcgagtatatggataccatttcactccattatcgtaactgctctgcctacttgat-ttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT-----------
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---agtgaacttgtg---tttttttcattc-tgattt---gttttgtggaggtttttgcgatttaaagtcgt--caactttgtgtttttattgttgtgtagagcttcacaagAAGGAGACATGTGAGGCTGTTACCATCATTGAGACACCTGCTATGGTGGTTGTTGGAGTTGTTGCCTATGTGAAGACTCCTAGAGGTTTGAGGTCTTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggataccatttcactccattatcgtaactgctctgcctacttgatttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
tttctac CT-rich tract
ttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgttgaatatccacaactgcttgcacccatgaatctcgagtatatggataccatttcactccattatcgtaactgctctgcctacttgatttctacagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC