Sequence
atgc intronic sequence ATGC exonic sequencegtaaaacatttggttttatttgtaattgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 13
gtaaaacatttggttttatttgtaattgaactacagag--atttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcc--cagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
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--------gtaagtatcatgcata-ttctcctaccttcctattcagtattttatacattttt-caggtgt---tttga---gggaattcaactgtgctcttgcagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAACACAAGAAGAAGGAAAAAGCTGAAGCTCATCTCTACACCATCATAAAG
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 9
gtaaaacatttggttttatttgtaattgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaa--tcccagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
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-tttacaatctgcatatctttacgatggtatttcctggttttctcccttttaatgt-catggacttctg-atacagtttggatgataaactgtggattttcagGTAAGGTTGAAGAAAGAACAAGAAGAGAAAGAACACAAAAAGAAAGAGAAGGCTGAAGCTCATCTTTATACCATCATAAAG
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G303655_T01 (Zea mays), 3'ss of exon 3
gtaaaacatttggttttatttgta-attgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
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gtaagtagttcggtagttcctgtatactttcccacttttctttgt--atcatcttgtatttttgt-tgaagatagtgattgattgaactattctt-ttacagATAAGGTTGAAGAAAGAACAAGAAGAGAAAGAACACAAGAAGAAGGAGAAGGCTGAAGCTCATCTCTACACTATCATAAAG
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 13
gtaaaacatttggttttatttgtaattgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
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-----gtaagtagttctggt-atactttgtccccttttctatgt--atcatcttgtgtttttgt-tggagatagtgattgattgaactgttctt-ttacagATAAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCACAAGAAGAAGGAGAAGTCTGAAGCTCATCTCTACACTATCATAAAG
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 13
gtaaaacatttggttttatttgtaattgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
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-----------------gtaagaaattcatatacacgggttt--tcctttttacctgtctggatttt--gcttgattcagctaattacttccta---ccagGTGAGGCTGAAAAAAGAACAAGAAGAAAAGGAAGATAAAAGAAAATACAAGGCTCAAGCTCACCTTTTCACGACAATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
aatcaaaatctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaacatttggttttatttgtaattgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccagATAAGGTTGAAGAAAGAACAAGAAGAGAAGGAGGATAAGAGAAAATATAAAGCACAAGCCCACCTTTTTACTATTATAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA