Sequence
atgc intronic sequence ATGC exonic sequence...gagaaaggatagttgagtgctccagctgctctcgcagttctgtgcaaccaacggcttgttcttaacccccttctctgccaccaaaaccgatctatttcagGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G155384_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g05340.1 (Oryza sativa), 3'ss of exon 2
gagaaaggatagttgagtgctccagctgctctcgcagttctgtgcaaccaacggct--tgttcttaacccccttctctgccaccaaaa--ccgatctatttc--agGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
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------gtttattttgatccaccatagttagatttacttggttaagaccaaattttgttgctttgatttccatcttctgtcactaaaatatcatcctccctaaaagGCAGGAGATTCGTTCCGCCACAAGCTCAATGACATCTGTACCAAAGCCACTGAAATTCCTCCGGCCACACTATGGAACACTCAAGTCTTACTTTGAAACC
upper sequence: GRMZM2G155384_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 2
gagaaaggatagttgagtgctccagctgctctcgc----agttctgtgcaa----ccaacggcttgttcttaacccc----cttctctgccaccaaaaccgatc------tatttcagGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
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--gtaaacctagttttatgctcgaactgaacacattttgatttgaatgggaatttttggctatttattctagttttgaatgcatgtttgaaattggaatttgtggttgtgtgttgcagGCAAGAAATTCGAACTTCCACGAGCTCTATGACTTCGGTTCCTAAGCCATTGAAGTTCCTTCGTCCGCATTATGGCACTCTTAAGACCTATTATGAAACT
upper sequence: GRMZM2G155384_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 2
gagaaaggatagttgagtgctccagctgctc----tcgcagttctgtgcaaccaacggcttgttcttaacccccttctctgccaccaaaaccga----------tctatttcagGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
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--gtaaacctagttttatgctcgaaaggaacaaattttgatttgaatggacatttttaactattttttttagttttatttgtgtttgaaattggaatgtgtggttgtgttctagGCAAGAAATTCGAACTTCCACGAGCTCTATGACTTCGGTTCCTAAGCCGTTGAAGTTCCTTCGCCCTCATTATGGCACTCTTAAAACGTATTATGAAACT
upper sequence: GRMZM2G155384_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ26022 (Selaginella moellendorffii), 3'ss of exon 2
gagaaaggatagttgagtgctccagctgctctcgcagttctgtgcaaccaacggcttgttcttaacccccttctctgccaccaaaaccgatctattt---cagGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
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---------------------------------------gtacgcgagtaggagtttaatcgt---------tcgtgttgtgaggagctgtgtgtatgcgcagGCAAGAGATTCGGAGTGCTACAAGCTCCATGACTTCCGTGCCCAAGCCGCTGAAATTCCTCCGCCCGCATTATGGGACTTTGAAGGCGTTCTTCCAGAAA
upper sequence: GRMZM2G155384_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ14427 (Selaginella moellendorffii), 3'ss of exon 2
gagaaaggatagttgagtgctccagctgctctcgcagttctgtgcaaccaacggcttgttcttaacccccttctctgccaccaaaaccgatctattt---cagGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
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---------------------------------------gtacgcgagtaggagtttaatcgt---------ttgtgttgtgaggagctgtgtgtatgcgcagGCAAGAGATTCGGAGTGCTACAAGCTCCATGACTTCCGTGCCCAAGCCGCTGAAATTCCTCCGCCCGCATTATGGAACTTTGAAGGCGTTCTTCCAGAAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|18649994|gb|BM498813.1|BM498813EST: GCGCAGGACGCGGATCCCGGCGTGCAGTAGCTCGCGCTCGAGAGCATGAG GCAGGAGATTC
genomic: GCGCAGGACGCGGATCCCGGCGTGCAGAAGCTCGCGCTCGAGAGCATGAGgtaccgctcg ... tctatttcagGCAGGAGATTC
EST:
gi|19822561|gb|BQ048585.1|BQ048585EST: GCGCAGGACGCGGATCCCGGCGTGCAGAAGCTCGCGCTCGAGAGCATGAG GCAGGAGATTC
genomic: GCGCAGGACGCGGATCCCGGCGTGCAGAAGCTCGCGCTCGAGAGCATGAGgtaccgctcg ... tctatttcagGCAGGAGATTC
EST:
gi|86468329|gb|DY234699.1|DY234699EST: GCGCAGGACGCGGATCCCGGCGTGCAGAAGCTCGCGCTCGAGAGCATGAG GCAGGAGATTCGCTCT
genomic: GCGCAGGACGCGGATCCCGGCGTGCAGAAGCTCGCGCTCGAGAGCATGAGgtaccgctcg ... tctatttcagGCAGGAGATTCGCTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccaacggcttgttcttaacccccttctctgccaccaaaaccgatctatttcagGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
tcttaac putative branch site (score: 2)
tctatttc putative PPT
atctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagaaaggatagttgagtgctccagctgctctcgcagttctgtgcaaccaacggcttgttcttaacccccttctctgccaccaaaaccgatctatttcagGCAGGAGATTCGCTCTGCCACGAGCTCGATGACTTCGGTTCCAAAGCCACTGAAATTCCTCCGCCCACACTTTGGAACTCTCAAGTCCTATTTCGAAACA
- - - - - - - - gtgctcc
- - - - - - - - - - - - gctgctc
- - - - - - - - - - - - - - - - - - -ttctgtg
- - - - - - - - - - - - - - - - - - - - - - caaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaccaa