Sequence
atgc intronic sequence ATGC exonic sequence...aaacattcattaattcagtttgtaatttgaggctttgatttccatctaactcaggattggaaacaaaaaatgaattccacatgctttgttccttctgcagGGTGACAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGGGATCCCAAATACCAGCAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g51690.1 (Oryza sativa), 3'ss of exon 6
---aaacattcattaattcagtttgtaatttgaggctttgatttccatctaactcaggattggaaacaaaaaatgaattccacatgctttgt-tccttctgcagGGTGACAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGGGATCCCAAATACCAGCAGAAG
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catcaataattgctcaatggattgtttataaatgcatttgacctgaaactattttctctctctt--tggatggtgaa--ccatgtacattgtgtgtttctgcagGGTGATAGTATCCTTGCTGATTCTGGCACGGAGCAACTTGAATTTATAGCTTTGTCACAGAGGACTGGTGATCCCAAGTATCAACAAAAG
upper sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA17G06600.1 (Glycine max), 3'ss of exon 6
aaacattcattaattcagtttgtaatttgaggctttgatttccatctaactcaggattggaaacaaaaaatgaattccacatgctttgttccttctg--cagGGTGACAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGGGATCCCAAATACCAGCAGAAG
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--gcaatgattttcaagatttgtctagcgcacccacctatagactatagtgaaatttttgtagctcgttctatgttcttaattgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
upper sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 6
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 6
aaacattcattaattcagtttgtaatttgaggctttgatttccatctaactcaggattggaaacaaa--aaatgaatt--ccacatgctttgttccttctgcagGGTGACAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGGGATCCCAAATACCAGCAGAAG
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tttcactagcaagctca-tgtttaatgtggaa---tgggtaccatctgatctatttacatatgtctttcggtttagttgattgtttacttctttcttgttttagGGAGACAGTATTCTTGCAGATTCTGGTACTGAGCAGCTTGAATTTATTGCCCTTTCCCAGAGGACAGGGGACCCAAAATATCAGCAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaactcaggattggaaacaaaaaatgaattccacatgctttgttccttctgcagGGTGACAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGGGATCCCAAATACCAGCAGAAG
atctaac putative branch site (score: 2)
tgctttgttccttct putative PPT
aaacaaaaaatgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacattcattaattcagtttgtaatttgaggctttgatttccatctaactcaggattggaaacaaaaaatgaattccacatgctttgttccttctgcagGGTGACAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGGGATCCCAAATACCAGCAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA