Sequence
atgc intronic sequence ATGC exonic sequence...aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 5
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccct----catt--gggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
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---atttaattaatttttattt---agcttcttttagtgcacttgaaagatgacaatatttaattctactgaatgtggcagtcaaaccttttagttttattttcagGGAAACAGTCTACTTCGGGCACTGAATGTTGCTGCCTTTGCAATTTCTGGATATGCATCATCTGAAGGTCGTCATTGTAAACCCTTTAATCCATTGTTAG
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 5
aatgctaaaatattttgtgattg---ttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcct-ttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
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----tttaattattttttatttagcctcctatagttcagttgaaagatgacattgtttaatgctattgaatgtggcagttcaaacctttgagttttattttcagGGAAACAGTCTCCTTCGGGCACTGAATGTTGCTGCCTTTGCAATTTCTGGATATGCATCATCTGAAGGTCGTCATTGTAAACCCTTTAATCCATTGTTAG
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 4
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatct-tcatgaaatc-tgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
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ttcgatgaatttgtatgtaacaattaagtat-tttgtggtataaggattaatgataatattattgtatttgatagtc-ttacccttcgaataatttttgcagGGAAACGGTCTCCTTCGGGCACTTTATGTTGCTGCCTTTGCAGTTTCCGGATATGCGTCATCTGAAGGTCGTAATTGTAAACCCTTTAATCCTTTATTAG
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G03420.2 (Glycine max), 3'ss of exon 6
--aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
||| ||| || || | || | ||| || | || || | | | | | | ||| || | || || ||| |||||||| ||||||| | | | ||||||| || ||||| ||||| ||||||||||| ||||||||||| |||| |||||||| || || || |||
taaattctataaatttgtatg--taacaaatgagtattttgtggtagaaggattaatgataatattgtatttgatagttttaccctttgaattattttgcagGGAAACGGTCTCCTTCGGGCATTGTATGTTGCCGCATTTGCAGTTTCCGGATATGCGTCATCTGAAGGTCGTAATTGTAAACCCTTTAATCCTTTATTAG
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G22540.1 (Arabidopsis thaliana), 3'ss of exon 4
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
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------------gtaagtgac-accaaagtctcttacttatcttgtacattactacattctgtttatcttatattgacttaaagcctattggataatcagGGGAATGGTCTCTTAAGAGCCTTAAATGTTGCTGCTTTTGCGGTCTCTGGATATGCTTCCACTGAAGGCAGGCATTGTAAGCCCTTCAATCCTTTGCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
atctgac putative branch site (score: 3)
tttttccctcattggg CT-rich tract
tttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG