Sequence
atgc intronic sequence ATGC exonic sequencegtaagaacatcttcagtcttctccaactcaaaggttctgatagtgaggtgtgccttttttattggatttcccttcaatgccttcagGTTTGTCCAGTGACTACGTTGCACCTGAGGAAGTAACAGCTGCAGGTTTTCAAATTTGTGCTGATGAGTTGGGATCAATTGTGGAAGGCCATGACTTAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g09150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G04810.1 (Glycine max), 3'ss of exon 2
gtaagaacatcttcagtcttctccaactcaaaggttctgatagtgaggtgtgccttttttattgga-----tttcccttcaatgccttcagGTTTGTCCAGTGACTACGTTGCACCTGAGGAAGTAACAGCTGCAGGTTTTCAAATTTGTGCTGATGAGTTGGGATCAATTGTGGAAGGCCATGACTTAAA
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gtaagaaagtc---aacctgcatgagctttgatattattgtgacgttttcacttttacacaataagcaagtctttgctcctccagGTCTAAATTTGTCAACTGAGTACACTGTACCAGAAGAAGTTAAAACTGCAGGCTTTGAAATTTGTGCTGATGAGCTGGGATCAATTGTTGAGGGACGTGA------
upper sequence: Vv18s0001g09150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G04900.1 (Glycine max), 3'ss of exon 2
gtaagaacatcttcagtcttctccaactcaaaggttctgatagtgaggtgtgc-cttttttattgga-------tttcccttcaatgccttcagGTTTGTCCAGTGACTACGTTGCACCTGAGGAAGTAACAGCTGCAGGTTTTCAAATTTGTGCTGATGAGTTGGGATCAATTGTGGAAGGCCATGACTTAAA
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gtaagaaagtc---aacctgcatgtactttaatatt---gttgtgaagttttcacttttatacaataagcaagtctttgctcctccagGTCTAAATTTGTCGAGTGAGTACACTGTACCAGAAGAAGTTAAAGCAGCAGGCTTTGAAATTTGTGCTGATGAGCTGGGATCAATTGTTGAGGGACGTGA------
upper sequence: Vv18s0001g09150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G27770.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagaacat-cttcagtcttctccaactcaaaggttctgatagtgaggtgtgccttttttattggatttcccttcaatgccttcagGTTTGTCCAGTGACTACGTTGCACCTGAGGAAGTAACAGCTGCAGGTTTTCAAATTTGTGCTGATGAGTTGGGATCAATTGTGGAAGGCCATGACTTAAA
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gtgagaatagactactcccttgtgttattcaa----tatg-tatttgatttccttaacgagaaggtattgcgtgcttacagGTTTAAAGTTGTCCAGTGAGTATACACTACCTGAAGAAGTAAGAAAAGCAGGGTTTGAGATTTGTCCTGATGAGTTGGGATCAATTGTAGAAGGTCATGA------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggttctgatagtgaggtgtgccttttttattggatttcccttcaatgccttcagGTTTGTCCAGTGACTACGTTGCACCTGAGGAAGTAACAGCTGCAGGTTTTCAAATTTGTGCTGATGAGTTGGGATCAATTGTGGAAGGCCATGACTTAAA
ttctgat putative branch site (score: 3)
tgccttc putative PPT
ttttttattggattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaacatcttcagtcttctccaactcaaaggttctgatagtgaggtgtgccttttttattggatttcccttcaatgccttcagGTTTGTCCAGTGACTACGTTGCACCTGAGGAAGTAACAGCTGCAGGTTTTCAAATTTGTGCTGATGAGTTGGGATCAATTGTGGAAGGCCATGACTTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG