Sequence
atgc intronic sequence ATGC exonic sequence...taggtttcattttattaataaaacatgcattttgtctctcctagaaaatatttgtttaatttcgttcatgtactaattcatttccattctgaatttgcagGCTGATAATTTGAGACAGCAAACCATTCACCAATTGTGTCGGATACTGACAGTTCGACAAGCAGCACGTTGTTTTTTGGTGATTGGCGAGTACTATGGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G19030.1 (Glycine max), 3'ss of exon 8
taggtttcattttattaataaaacatgcattttgtctctcc-tagaaaatatttgtttaattt---cgttcatgtactaattcatttccattctgaatttgcagGCTGATAATTTGAGACAGCAAACCATTCACCAATTGTGTCGGATACTGACAGTTCGACAAGCAGCACGTTGTTTTTTGGTGATTGGCGAGTACTATGGCC
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----gattattatatatataattaatgaatttattcattaaataccatactttcttctgacttaattgtttcatttctcacccaattaatcaattgtgttgaagGCTGATAATTTGAGGCAACAAACCCTTCACCAATTATGTCGATTGCTGACAGTTCGTCAAGCAGCAAGGTGTTTTCTTGTGATTGGAGAGTATTATGGCC
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G09430.3 (Glycine max), 3'ss of exon 11
taggtttcattttattaataaaacatgcatttt-gtctctcctagaaaatatttgtttaatttcgttc---atgtactaattcatttccattctgaatttgcagGCTGATAATTTGAGACAGCAAACCATTCACCAATTGTGTCGGATACTGACAGTTCGACAAGCAGCACGTTGTTTTTTGGTGATTGGCGAGTACTATGGCC
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--atctataattaatgaatgaactaaataccgtagtttcttctg--acttaattgtttcagttctcacccaattaattaatcaatttgtgtttctgaattgaagGCTGATAATTTGAGGCAAATAACCCTTCACCAATTATGTCGATTGCTGACAGTCCGTCAAGCAGCACGGTGTTTTCTTGTGATTGGAGAGTATTATGGCC
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G30990.1 (Glycine max), 3'ss of exon 11
----taggtttcattttattaataaaacatgcattttgtctctcctagaaaatatttgtttaatttcgttcatgtactaattcatttccattctgaatttgcagGCTGATAATTTGAGACAGCAAACCATTCACCAATTGTGTCGGATACTGACAGTTCGACAAGCAGCACGTTGTTTTTTGGTGATTGGCGAGTACTATGGCC
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tcaatatatgtagacatag-agtcatagacacatgcattaattcttaaattattggtgacttattaacttc---cataaacttttatgtgtttatgaattgaagGCTGATAATTTGAGGCAGCAAACTCTTCATCAGCTATGTCGATTACTCACAGTTCGTCAAGCAGCACGATGCTTTATTGTTATTGGAGAGTACTATGGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatatttgtttaatttcgttcatgtactaattcatttccattctgaatttgcagGCTGATAATTTGAGACAGCAAACCATTCACCAATTGTGTCGGATACTGACAGTTCGACAAGCAGCACGTTGTTTTTTGGTGATTGGCGAGTACTATGGCC
tactaat putative branch site (score: 1)
tttgtttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggtttcattttattaataaaacatgcattttgtctctcctagaaaatatttgtttaatttcgttcatgtactaattcatttccattctgaatttgcagGCTGATAATTTGAGACAGCAAACCATTCACCAATTGTGTCGGATACTGACAGTTCGACAAGCAGCACGTTGTTTTTTGGTGATTGGCGAGTACTATGGCC
- - - - - - - - aataaaa
- - - - - - - - - - - -catgcat
- - - - - - - - - - - - - - - - - -ctctcct
- - - - - - - - - - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtac