Sequence
atgc intronic sequence ATGC exonic sequence...ctgtttgaatatccacaactgcttgcacccatgaatctcgagtacatggataccatttcactccattatcgtaactgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G135727_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g06750.1 (Oryza sativa), 3'ss of exon 3
ctgtttgaatatccacaactgcttgcac-ccatgaatctcgagtacat--ggatac-catttcactccattatcgtaac-tgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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-----tggcctttagccaagactttaatactaagactttagtattcatctgaatatgcatactactgaagagatttaaccttgtcatttttctaatgcttttcagAACTCCACAAGAAGGAGACCTGTGAGGCTGTTACCATTATTGAGACACCTCCTATTGTCGTTGTTGGACTTGTGGCCTATGTGAAGACTCCACGTGGCTT
upper sequence: GRMZM2G135727_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G30810.1 (Glycine max), 3'ss of exon 3
---------ctgtttgaatatccacaactgcttgcacccatgaatctcgagtacatggataccatttcactccattatcgtaactgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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aagctaatgatgtattgcattctttaactgtttacatgtaacgttctcttat---tatatactatc---ctttatctatctaactatataatattttctata---tcagAGCTTCACAAGAAGGAAACATGTGAGCCTGTTACAATTATTGAGACCCCTCCAATGGTTATTGTTGGTGTTGTGGGTTATGTGAAAACTCCCCGTGGTCT
upper sequence: GRMZM2G135727_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G36780.1 (Glycine max), 3'ss of exon 3
---------ctgtttgaatatccacaactgcttgcacccatgaatctcgagtacatggataccatttcactccattatcgtaactgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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tgaagctaatagtattgaattctttaactatt---acatgaaactttctcttacttgt-tatagcatcatttaattatc-taactatatttctttttta----tatcagAGCTTCACAAGAAGGAAACTTGTGAGCCTGTTACAATTATTGAGACCCCTCCAATGGTTATTGTTGGTGTTGTGGGTTATGTGAAAACTCCACGTGGTCT
upper sequence: GRMZM2G135727_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT1G43170.7 (Arabidopsis thaliana), 3'ss of exon 3
ctgtttgaatatccacaactgcttgcacccatgaatctcgagtacatggataccatttcactccattatcgt-aactgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
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------gtaagtgaacttgtgttt-ttttcattctgatttgttttgtggaggtttttgcgatttaaagtcgtcaactttgtgtttttattg--ttgtgtagAGCTTCACAAGAAGGAGACATGTGAGGCTGTTACCATCATTGAGACACCTGCTATGGTGGTTGTTGGAGTTGTTGCCTATGTGAAGACTCCTAGAGGTTT
upper sequence: GRMZM2G135727_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT1G43170.4 (Arabidopsis thaliana), 3'ss of exon 1
ctgtttgaatatccacaactgcttgcacccatgaatctcgagtacatggataccatttcactccattatcgtaactgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT-----------
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---agtgaacttgtgtt-tttttcattctgatttgttttgtggaggtttttgcgatttaaagtcgtcaactttg-tgtttttattg------ttgtgtagagcttcacaagAAGGAGACATGTGAGGCTGTTACCATCATTGAGACACCTGCTATGGTGGTTGTTGGAGTTGTTGCCTATGTGAAGACTCCTAGAGGTTTGAGGTCTTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggataccatttcactccattatcgtaactgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
ctcttcctacttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtttgaatatccacaactgcttgcacccatgaatctcgagtacatggataccatttcactccattatcgtaactgctcttcctacttgatttcttcagAACTCCATAAGAAGGAAACTTGTGAGGCTGTTACCATCATTGAAACCCCTCCTCTTGTCATTGTTGGGCTCGTGGCATATGTGAAGACTCCTCGTGGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC