Sequence
atgc intronic sequence ATGC exonic sequencegtaagctgctgcatctgaaatttctgtatgtttgttggttgaacttcttgtggttctggagctatatatgggctcttggcccaattggcaagcatttggttgaatttataagcttggacagaaccatggaagctttctgaatttcggcaaacataatggtaattcttcctatataacccttgcagGATAGCGAACCTGATATTATTGATGGTGTGGGTGCTGAAGCAGGTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G28730.2 (Glycine max), 3'ss of exon 2
gtaagctgctgcatctgaaatttctgtatgtttgttggttgaacttcttgtggttctggagctatatatgggctcttggcccaattggcaagcatttggttgaatttataagcttggacagaaccatggaagctttctgaatttcggcaaacataatggtaattcttcctatataacccttgcagGATAGCGAACCTGATATTATTGATGGTGTGGGTGCTGAAGCAGGTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAG
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------------------------------------------------------------------------------actgaacaaacaagccctaagtttactgtctt--ctgaaattcgaacat-----tttttctcgtttctcttcctgtcaatttgaattgcccgttttgtgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTCATAAGAACCAGCATTGGTGGCCGAAATGGTCAGTCTAAGCAG
upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G00400.1 (Glycine max), 3'ss of exon 1
gtaagctgctgcatctgaaatttctgtatgtttgttggttgaacttcttgtggttctggagctatatatgggctcttggcccaattggcaagcatttggttgaatttataagcttggacagaaccatggaagctttctgaatttcggcaaacataatggtaattcttcctatataacccttgcagGATAGCGAACCTGATATTATTGATGGTGTGGGTGCTGAAGCAGGTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAG
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---------------------------------------------------------------------------gtcagtcattcacttcaaatttatcttcatttcttctttttcccttttacaaaatattgccctaacttttctttcttcttaaattccacctttttttcctaccctttcagGATAGTGAGCCTGACATCATTGATGGTTTGGGTGCTGAGACTGGTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG
upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G09840.6 (Arabidopsis thaliana), 3'ss of exon 2
gtaagctgctgcatctgaaatttctgtatgtttgttggttgaacttcttgtggttctggagctatatatgggctcttggcccaattggcaagcatttggttgaatttataagcttggacagaaccatggaagctttctgaatttcggcaaacataatggtaattcttcctatataacccttgcagGATAGCGAACCTGATATTATTGATGGTGTGGGTGCTGAAGCAGGTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAG
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-------------------------------------------------gtaagtcttgcattgcttcttcttttttt-catgtttattcaactgttttttagcttcacttctttatcctgagct-tatatatgttatggagttggttaca-gtgtctgaggttttcgttacgt------tgcagGATAGTGAACCAGATATTATTGATGGGGCTGGTGCTGAGCCTGGTCATGTGATTAGAACCACACTCCGTGGTCGAAATGGTCAATCAAGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agctttctgaatttcggcaaacataatggtaattcttcctatataacccttgcagGATAGCGAACCTGATATTATTGATGGTGTGGGTGCTGAAGCAGGTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAG
atataac putative branch site (score: 3)
cccttgc CT-rich tract
aaacataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctgctgcatctgaaatttctgtatgtttgttggttgaacttcttgtggttctggagctatatatgggctcttggcccaattggcaagcatttggttgaatttataagcttggacagaaccatggaagctttctgaatttcggcaaacataatggtaattcttcctatataacccttgcagGATAGCGAACCTGATATTATTGATGGTGTGGGTGCTGAAGCAGGTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG