Sequence
atgc intronic sequence ATGC exonic sequence...tatgatggaaattttactaatataatatgtgccatgaaaaaagataaccatgagctgactttattttcatatttctgtctctctgtttttccaagtatagTGGCGAGGGAAATGGCAAGCAGGAATCAGATGCTCAAGGGCTGATTGGCCATTATCAACTTTGAAAGCGAAGCCAACTCATGACAGGAAGAAGTATGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G38670.1 (Glycine max), 3'ss of exon 1
tatgatggaaattttactaatataatatgtgccatgaaaaaagataaccatga--gctgactttattttcatatttctgt---ctctctgtttttccaagtatagTGGCGAGGGAAATGGCAAGCAGGAATCAGATGCTCAAGGGCTGATTGGCCATTATCAACTTTGAAAGCGAAGCCAACTCATGACAGGAAGAAGTATGTTG
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catttagaaacttagaaggtttcactctgttaaaaaatgtaaaatcaaaatgaaagcttttctaattttctattctttgtgacttctctgtcttttt-----tagTGGAGAGGGAAGTGGCAGGCTGGTATCCGGTGTGCAAGGGCTGACTGGCCATTATCAACTTTGAAAGCAAAACCAACTCATGACAGAAAGAAATATTTTG
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G06760.1 (Glycine max), 3'ss of exon 1
tatgatggaaattttactaatataatatgtgccatgaaaaaagataaccatgagctgactttattttcatatttctgtctctctgt-ttttccaagtatagTGGCGAGGGAAATGGCAAGCAGGAATCAGATGCTCAAGGGCTGATTGGCCATTATCAACTTTGAAAGCGAAGCCAACTCATGACAGGAAGAAGTATGTTG
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ttacatatttcattgaccaacttgggggggggggggaggggaggaaagtcagaatgcaatgtggcctaat-tttgtgtttttctttacttgtcttttttagTGGAGAGGGAACTGGCAGGCTGGTATCAAATGTGCAAGGGCTGACTGGCCATTATCAACTTTAAAAGCAAAACCAACTCATGACCGGAAGAAATATTTTG
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G06620.1 (Glycine max), 3'ss of exon 1
tatgatggaaattttactaatataatatgtgccatgaa---aaaagataaccatgagctgactttattttcatatttctgtctctctgtttttccaagtatagTGGCGAGGGAAATGGCAAGCAGGAATCAGATGCTCAAGGGCTGATTGGCCATTATCAACTTTGAAAGCGAAGCCAACTCATGACAGGAAGAAGTATGTTG
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tcatttagaaacttggaaggttttcactctgttaaaaatggaaaatcaaaatgcaagctttgctaattttctattctttatgacttctttgtctt---tttagTGGAGAGGGAAGTGGCAGGCTGGTATCCGATGTGCAAGGGCTGACTGGCCGTCATCAACTTTGAAAGCAAAACCAACTCATGACAGAAAGAAATATTTTG
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G25800.1 (Glycine max), 3'ss of exon 2
-------tatgatggaaattttactaatataatatgtgccatgaaaaaagataaccatgagctgactttattttcatatttctgtctctctgtttttccaagtatagTGGCGAGGGAAATGGCAAGCAGGAATCAGATGCTCAAGGGCTGATTGGCCATTATCAACTTTGAAAGCGAAGCCAACTCATGACAGGAAGAAGTATGTTG
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gcagacacctcttacatatttcattgac-caacttgggggggaggaaagtcagaatgcaatgtggcctaatttg-gtgttgttttttacttgtcttttt-----tagTGGAGAGGGAGCTGGCAGGCTGGTATCAAATGTGCAAAGGTTGACTGGCCATTATCAACTTTAAAAGCAAAACCAACTCATGACCGGAAGAAATATTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccatgagctgactttattttcatatttctgtctctctgtttttccaagtatagTGGCGAGGGAAATGGCAAGCAGGAATCAGATGCTCAAGGGCTGATTGGCCATTATCAACTTTGAAAGCGAAGCCAACTCATGACAGGAAGAAGTATGTTG
agctgac putative branch site (score: 3)
ctttattttcatattt CT-rich tract
actttattttcatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgatggaaattttactaatataatatgtgccatgaaaaaagataaccatgagctgactttattttcatatttctgtctctctgtttttccaagtatagTGGCGAGGGAAATGGCAAGCAGGAATCAGATGCTCAAGGGCTGATTGGCCATTATCAACTTTGAAAGCGAAGCCAACTCATGACAGGAAGAAGTATGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- tgatgga
- - - - - - - - - - - - -tatgtgc
- - - - - - - - - - - - - - - - - -gaaaaaa
- - - - - - - - - - - - - - - - - - - - - -ataacca