Sequence
atgc intronic sequence ATGC exonic sequence...tgcccatgtagattaattcctctcaatttcctgaataaagtactggattttattcttatcctatttatctaacggctaaaccctattgcatgggctgaagATGTGGCTAAGCTCAACTCAACTGAGTGGTACTTCTTCAGCTTTAGGGACAGGAAGTATGCGACGGGCTACCGAACCAACAGGGCTACAACATCTGGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03610.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g43560.1 (Oryza sativa), 3'ss of exon 1
tgcccatgtagattaattcctctcaatttcctgaataaagtactggattttattcttatcctatttatctaacggctaaacc---ctattgcatgggc---tgaagATGTGGCTAAGCTCAACTCAACTGAGTGGTACTTCTTCAGCTTTAGGGACAGGAAGTATGCGACGGGCTACCGAACCAACAGGGCTACAACATCTGGATA
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---tcatgtatgcaaagccagactaattcgc---atgcactatctcaacttctcaagcccctctctaacaacgcattcgttcttgctattctttgcgcacatgcagACGTGGCGAAGCTGACGGCGAGCGAGTGGTACTTCTTCAGCTTCAGGGACCGAAAGTACGCGACGGGGTCGCGCACGAACCGCGCCACCAAGACAGGCTA
upper sequence: Vv07s0005g03610.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os10g33760.1 (Oryza sativa), 3'ss of exon 1
-tgcccatgtagatta-attcctctcaatt-tcctgaataaagtactggattttattcttatccta-tttatctaacggctaaaccctattgcatgggctgaagATGTGGCTAAGCTCAACTCAACTGAGTGGTACTTCTTCAGCTTTAGGGACAGGAAGTATGCGACGGGCTACCGAACCAACAGGGCTACAACATCTGGATA
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ttaatgaagggtgtaacatagcactaaatggttattaattagctgatg-attggatgcatatgagagcttaattagttttta--ttttgtta-acttttttcagAGGTGGCTAAGCTCACTGCAGAGGAGTGGTACTTCTTCAGCTTCAGAGACCGGAAATATGCGACAGGGTCACGGACGAACCGTGCGACCAAGACAGGTTA
upper sequence: Vv07s0005g03610.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G043813_T01 (Zea mays), 3'ss of exon 1
-------tgcccatgtagattaattcctctcaatttcctgaataaagtactggattttattcttatcctatttatctaacggctaaaccctattgcatgggctgaagATGTGGCTAAGCTCAACTCAACTGAGTGGTACTTCTTCAGCTTTAGGGACAGGAAGTATGCGACGGGCTACCGAACCAACAGGGCTACAACATCTGGATA
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gatcacttatctgccta-attaacacgt-tgaattaaacaaataaatt--tgctctatatacttattatatgtatatatggtgt---ctcgatcgatatgatatcagACGCGGCCAAGCTGACGGCGAGCGAGTGGTACTTCTTCAGCTTCAGGGACCGCAAGTACGCGACCGGGCCGCGCACGAACCGCGCCACCAAGACGGGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattttattcttatcctatttatctaacggctaaaccctattgcatgggctgaagATGTGGCTAAGCTCAACTCAACTGAGTGGTACTTCTTCAGCTTTAGGGACAGGAAGTATGCGACGGGCTACCGAACCAACAGGGCTACAACATCTGGATA
tatttatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcccatgtagattaattcctctcaatttcctgaataaagtactggattttattcttatcctatttatctaacggctaaaccctattgcatgggctgaagATGTGGCTAAGCTCAACTCAACTGAGTGGTACTTCTTCAGCTTTAGGGACAGGAAGTATGCGACGGGCTACCGAACCAACAGGGCTACAACATCTGGATA
- cccatgt
- - - - - - - - -tcctctc
- - - - - - - - - - - - - - - - gaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctattgc