Sequence
atgc intronic sequence ATGC exonic sequence...gaaacctgaaaatagaaaaaaaattatatgaagccagtagtcatttgtttctagtgtggcttttttctgaacttagaatatcttcctgttgataatgtagGATTTGTCATCCCCGGGAAAAGGATTCTTACAAATGCTCATGTCGTGGCTGATCACACATTTGTGCTTGTAAGAAAGCACGGTTCTCCTACCAAGTATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0215g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G00510.1 (Glycine max), 3'ss of exon 1
-gaaacctgaaaatagaaaaaaaattatatgaagccagtagtcatttgtttctagtgtggcttttttctgaacttagaatatcttcctgttgataatgtagGATTTGTCATCCCCGGGAAAAGGATTCTTACAAATGCTCATGTCGTGGCTGATCACACATTTGTGCTTGTAAGAAAGCACGGTTCTCCTACCAAGTATAG
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ataaatttgttgaagcgtgtatgcccttggccatgctgtcctagttggttacttttatg-ccttttcctttctctaaaaaatctttatgacggtgatgcagGGTTTGTAATTCTCGGTAGAAAGATTCTTACAAATGCTCATGTGGTAGCTGATCATTCTTTTGTACTTGTAAGGAAGCATGGTTGTCCCACCAAATATAG
upper sequence: Vv00s0215g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G65640.1 (Arabidopsis thaliana), 3'ss of exon 1
gaaacctgaaaatagaaaaaaaattatatgaagccagtagtcatttgtttctagtgtggcttttttctgaacttagaatatcttcctgttgataatgtagGATTTGTCATCCCCGGGAAAAGGATTCTTACAAATGCTCATGTCGTGGCTGATCACACATTTGTGCTTGTAAGAAAGCACGGTTCTCCTACCAAGTATAG
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-gtatttgatgtttatccataattcttatcaactcttttaagagtcgcgc---gcataagtattttcctaactga-------tccttggaactgatgtagGATTTGTAATCTCGGGAAAAAAGATTCTTACGAACGCTCATGTAGTTGCTGATCACATATTTTTGCAAGTTAGAAAACATGGCTCACCCACAAAATACAA
upper sequence: Vv00s0215g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G51150.1 (Arabidopsis thaliana), 3'ss of exon 1
gaaacctgaaaatagaaaaaaaattatatgaagccagtagtcatttgtttctagtgtggcttttttctgaa-cttagaatatcttcctgtt----gata---atgt-agGATTTGTCATCCCCGGGAAAAGGATTCTTACAAATGCTCATGTCGTGGCTGATCACACATTTGTGCTTGTAAGAAAGCACGGTTCTCCTACCAAGTATAG
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-gtattcataaacatctctctttctctctctctcgtgtgatttctttattagacttccaaattttaaaaaatcgtatggtattgttcggctttggaatatctatgttagGATTTGCAATCTCCGGGAGGAGGATTCTTACAAACGCTCATGTTGTGGGTGATCACTTATACCTGCAAGTGAGAAAACATGGTTCACCCACTAAATACAA
upper sequence: Vv00s0215g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G54745.1 (Arabidopsis thaliana), 3'ss of exon 2
-gaaacctgaaaatagaaaaaaaattatatgaagccagtagtcattt------gtttctagtgt---ggcttttttctgaacttagaatatcttcctgttga-----taatgtagGATTTGTCATCCCCGGGAAAAGGATTCTTACAAATGCTCATGTCGTGGCTGATCACACATTTGTGCTTGTAAGAAAGCACGGTTCTCCTACCAAGTATAG
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gtattcataaacatttctctctttctctctctctcgtgtgatttctttattagatttccaaagttaagaaaaccgtatggtattatattgttcggctttggaatatctatcttagGATTTGCAATCTCCGGGAGGAGGATTCTTACAAACGCTCATGTTGTGGGTGATCACTCATACCTGCAAGTGAGAAAACATGGTTCACCCACTAAGTACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttctagtgtggcttttttctgaacttagaatatcttcctgttgataatgtagGATTTGTCATCCCCGGGAAAAGGATTCTTACAAATGCTCATGTCGTGGCTGATCACACATTTGTGCTTGTAAGAAAGCACGGTTCTCCTACCAAGTATAG
tgttgat putative branch site (score: 4)
ttagaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaacctgaaaatagaaaaaaaattatatgaagccagtagtcatttgtttctagtgtggcttttttctgaacttagaatatcttcctgttgataatgtagGATTTGTCATCCCCGGGAAAAGGATTCTTACAAATGCTCATGTCGTGGCTGATCACACATTTGTGCTTGTAAGAAAGCACGGTTCTCCTACCAAGTATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - -gaaaata
- - - - - - - -aaaaaaa
- - - - - - - - - - - - - - -gaagcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcctgt