Sequence
atgc intronic sequence ATGC exonic sequence...agtttctatcatgacatatatacaagtcattatttcattgtcacacaatgataaatgtataactgctgctccatttttatttttattttttgtttgatagGGTTCTTCTATGCTAACCCCAGCAAGAAGGTATTTAACATTGAGAGCTCTCGGAGCTCCTGCTGTTCTTCTCTCCTTGGCCATGCAAGGGGTTTTTCGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0064g00940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G36610.1 (Glycine max), 3'ss of exon 4
agtttctatcatgacatatatacaagtcattatttcattgtcacacaatgataaatgtataactgctgctccatttttatttttattttttgtttgatagGGTTCTTCTATGCTAACCCCAGCAAGAAGGTATTTAACATTGAGAGCTCTCGGAGCTCCTGCTGTTCTTCTCTCCTTGGCCATGCAAGGGGTTTTTCGAG
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-----gtaagttaatttattcatca-tcaagagttaat-ataatttgtttatatacactttagttatagtggagttacttcatcattttgttttt---agGATTCTCCTATGCTAATTCCAGCAGAGAAGTATCTAAGATTGAGATCAATTGGGTCACCTGCTGTTCTTCTCTCCTTGGCCATGCAAGGAATCTTTCGAG
upper sequence: Vv13s0064g00940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G36620.1 (Glycine max), 3'ss of exon 7
agtttctatcatgacatatatacaagtcattatttcattgtcacacaatgataaatgtataactgctgctccatttttatttttattttttgtttgatagGGTTCTTCTATGCTAACCCCAGCAAGAAGGTATTTAACATTGAGAGCTCTCGGAGCTCCTGCTGTTCTTCTCTCCTTGGCCATGCAAGGGGTTTTTCGAG
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-------------------------------gtttctttattat-caattatcaattaat------tacacttttggcctgtttcttctttgttt---agGATTCTCCTATGTTAAACCCTGCAGAGAAGTACTTAAGATTGAGATCGTTCGGAGCACCTGCAGTACTTCTCTCCTTGGCCATGCAAGGCATCTTCGGAG
upper sequence: Vv13s0064g00940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G43020.1 (Glycine max), 3'ss of exon 5
agtttctatcatgacatatatacaagtcattatttcattgtcacacaatgataaatgtataactgctgctccatttttattt--ttattttttgtttg-atagGGTTCTTCTATGCTAACCCCAGCAAGAAGGTATTTAACATTGAGAGCTCTCGGAGCTCCTGCTGTTCTTCTCTCCTTGGCCATGCAAGGGGTTTTTCGAG
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--------gtatg-tatatatattttacatcaacatatcttcattatctagagagcatttttcttatcttttactaaagtggagctatttctcctttgtgtagGATTCTCCTATGCTAAACCCTGCTATTAAATACTTGAGATTGAGATCATTAGGTGCTCCTGCAGTGCTTCTCTCCTTGGCCATGCAAGGAATCTTTCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatgataaatgtataactgctgctccatttttatttttattttttgtttgatagGGTTCTTCTATGCTAACCCCAGCAAGAAGGTATTTAACATTGAGAGCTCTCGGAGCTCCTGCTGTTCTTCTCTCCTTGGCCATGCAAGGGGTTTTTCGAG
gtataac putative branch site (score: 3)
ctccatttttattttt putative PPT
tccatttttattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtttctatcatgacatatatacaagtcattatttcattgtcacacaatgataaatgtataactgctgctccatttttatttttattttttgtttgatagGGTTCTTCTATGCTAACCCCAGCAAGAAGGTATTTAACATTGAGAGCTCTCGGAGCTCCTGCTGTTCTTCTCTCCTTGGCCATGCAAGGGGTTTTTCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - tcatgac
- - - - - - - - - - - - - - - - - - - - tcacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgctg