Sequence
atgc intronic sequence ATGC exonic sequencegtatattgcctatttctataggtgcaattactatttctcatccatctgaattcatttttgagtatcatgctttgcagGCGCAGGTCAGAACAAGCTGCGGAAAATGAGGCCTGTAAGCGCTGCAACTGTAAGAAGTCAAAATGCTTGAAGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os07g07974.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------------------gtatattgcct-atttctataggtgcaattactatttctcatccatctgaattcatttttgagtatcat-gctttgcagGCGCAGGTCAGAACAAGCTGCGGAAAATGAGGCCTGTAAGCGCTGCAACTGTAAGAAGTCAAAATGCTTGAAGCT
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gtctgttttattgatttgatttccttctggaggtttgcgtcaaaaaaaaaaatccttctggagggtgacaggtgctacta-tgttcattgtat-tctgataactgatataacttttgttgatgtgcagGCGCAAATCAGATAATGGAGATGATGGTGAGGCATGCAAGCGCTGCAGCTGTAAGAAGTCAAAGTGCTTGAAACT
upper sequence: Vv14s0030g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g41230.2 (Oryza sativa), 3'ss of exon 4
gtatattgc--ctatttctataggtgcaattactatttctcatccatctgaattcatttttgagta---tcatgctttgcagGCGCAGGTCAGAACAAGCTGCGGAAAATGAGGCCTGTAAGCGCTGCAACTGTAAGAAGTCAAAATGCTTGAAGCT
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gtactttgtttctatgcccattattataggtcatgagaaccatttcgctgggcaaatcatgaaacacaataatgctatgcagACACAAGTTCGA-CAA--TGGTGATGGCACGTCGTGCAAGCGTTGTAGCTGTAAGAAGTCAAAATGCTTGAAGCT
upper sequence: Vv14s0030g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g43730.1 (Oryza sativa), 3'ss of exon 7
gtatattgcctatttctataggtgcaattactatttctcatccatctgaattcatttttgagtatcatgctttgcagGCGCAGGTCAGAACAAGCTGCGGAAAATGAGGCCTGTAAGCGCTGCAACTGTAAGAAGTCAAAATGCTTGAAGCT
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--gtatt--ctaggtatatatgtctaatta--aatgattactctgccaa--tcataaaatcatgtcgaattttgcagGCAGAAAT---GTCAAAATGACAATGTGGACTCGTGCAAACGTTGCAGCTGTAAGAAGTCAAAATGCTTGAAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaattactatttctcatccatctgaattcatttttgagtatcatgctttgcagGCGCAGGTCAGAACAAGCTGCGGAAAATGAGGCCTGTAAGCGCTGCAACTGTAAGAAGTCAAAATGCTTGAAGCT
aattcattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatattgcctatttctataggtgcaattactatttctcatccatctgaattcatttttgagtatcatgctttgcagGCGCAGGTCAGAACAAGCTGCGGAAAATGAGGCCTGTAAGCGCTGCAACTGTAAGAAGTCAAAATGCTTGAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC