Sequence
atgc intronic sequence ATGC exonic sequence...gtaccctagattttcccgatgtttgtaatttgatttgctaattgtagcaagactagggtaatattttctagagtgcctgttaactttctatgcatggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G044819_T02 (Zea mays), 3'ss of exon 4
gtaccctagattttcccgatgtttgtaatttgatttgctaattgtagcaagactagggtaatattttctagagtgcctgttaactttctatgcatggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG
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------------------gtagaggtaacacatttcgtcaa-------agtttctgggcttcattgatgagaactctaattcatgtttt-tgaat---agTGAAATATATGGAAGAGAATTGGTGGACCTGCGGAAAGAAATTCGATGGGAGTTCCTTAATACCCTTTTCTCTGTTTCAGAAGCTGTCATGTTCATGCAG
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04580.1 (Glycine max), 3'ss of exon 5
gtaccctagattttcccg-atgtttgtaatttgat--ttgctaattgtagcaagactagggtaatattttctagagtgcctgttaactttctatgca-tggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG
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---gcatgcatgctcacacacattaatagcttagtagatgtcatttgtca-aaaactggagtaatagtttctgtagtgccttttaattttgtatgcaatggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 5
gtaccctagattttcccg-atgtttgtaatttgat--ttgctaattgtagcaagactagggtaatattttctagagtgcctgttaactttctatgca-tggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG
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---gtgtgcatgttcacacacattattagcttagtagatgtcatttatcg-aaaaccggagtaataatttctgtagtgctacttaattttatatgcaatggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G21240.1 (Glycine max), 3'ss of exon 4
gtacccta-gattttcccgatgtttgtaatttgatttgctaattgtagcaagactagggtaatattt-tctagagtgcctgttaactttctatgcatggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG
|| || | | || ||||| ||||| | |||| | | || | ||| | | |||| ||| ||| | ||||||| |||||||| |||||||| ||||||||||| ||||| | | |||||||||| || ||||| ||| | |||||||| || ||||| ||||||| ||||||
agactatataagctgattagtgcttgtattttgaaat--caattaaataatattcagtttgccctttatttcaagtgttacctaattttatgtgcatggaagTGAGATCTATGGGAGAGAACTGGTGGACCTGCGGCAAAAGAGTCGATGGGAGTTTCTCAACACATTCTTCTCTGTGTCCGAAGCTGTGGCTTACATGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcaagactagggtaatattttctagagtgcctgttaactttctatgcatggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG
tgttaac putative branch site (score: 2)
ctttctat CT-rich tract
taatattttctaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccctagattttcccgatgtttgtaatttgatttgctaattgtagcaagactagggtaatattttctagagtgcctgttaactttctatgcatggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
-tacccta
- - - - - - - cccgatg
- - - - - - - - - - - - - - - - - - - - - tgtagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcctgt