Sequence
atgc intronic sequence ATGC exonic sequence...ccccttcaacacgttccaatttttaaagcaattctgcagacctcttccccccacagtttacgtttgctcaggatcttttcttgttaataatatgttgcagGCCACGATGCCTTCCAGCGAGAAGCACCCATCTCGCGTGCCCATGTGGAAAGGAGTAAAGTTTTCATACACCATCATTGCTTTGGGCTTATTTCCCCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0302g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G08770.1 (Glycine max), 3'ss of exon 3
ccccttcaacacgttccaatttttaaagcaattctgcagacctcttccccccacagtttacgt---ttgc-tcaggatcttttcttgttaataatatgttgcagGCCACGATGCCTTCCAGCGAGAAGCACCCATCTCGCGTGCCCATGTGGAAAGGAGTAAAGTTTTCATACACCATCATTGCTTTGGGCTTATTTCCCCTTG
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----atcaatgtaaaaaatacttcaaatctactatagtaagcttagtggtgaaaaatttaagtagtttgtattaattagtcttctttttatactttccttgcagTCTACTATGCCTTCAAGCGAGAAGCATCCATCACACGTGCCCATGTGGAAAGGGGTCAAGGTTTCTTACACAATCATTGCCGCATGCTTATTTCCCATGG
upper sequence: Vv00s0302g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G36590.1 (Glycine max), 3'ss of exon 3
ccccttcaacacgttccaatttttaaagcaattctgcagacctcttccccccacagtttacgt---ttgctcaggatcttttcttgttaataatatgttgcagGCCACGATGCCTTCCAGCGAGAAGCACCCATCTCGCGTGCCCATGTGGAAAGGAGTAAAGTTTTCATACACCATCATTGCTTTGGGCTTATTTCCCCTTG
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caatgtaaaaatacttcaaacttcaatactatatagttagcttaggggtgaaa-agtttaagtagtttgtattaatagtcttctttttact--ttccttgcagTCTACTATGCCTTCAAGCGAGAAGCATCCATCACACGTGCCAATGTGGAAAGGGGTCAAGGTTTCTTACACGATCATTGCAGCATGCTTATTTCCCATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccccccacagtttacgtttgctcaggatcttttcttgttaataatatgttgcagGCCACGATGCCTTCCAGCGAGAAGCACCCATCTCGCGTGCCCATGTGGAAAGGAGTAAAGTTTTCATACACCATCATTGCTTTGGGCTTATTTCCCCTTG
tgttaat putative branch site (score: 3)
atcttttcttgttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccccttcaacacgttccaatttttaaagcaattctgcagacctcttccccccacagtttacgtttgctcaggatcttttcttgttaataatatgttgcagGCCACGATGCCTTCCAGCGAGAAGCACCCATCTCGCGTGCCCATGTGGAAAGGAGTAAAGTTTTCATACACCATCATTGCTTTGGGCTTATTTCCCCTTG
-cccttca
- - - - -cacgttc
- - - - - - - - - - - - aaagcaa
- - - - - - - - - - - - - - - - tctgcag