Sequence
atgc intronic sequence ATGC exonic sequence...aagaatgaagagaactagtgtaataaattcatttctagtcttgagtttcggataagaaaaatgggttctgatccgtgaagggtgacggaatatgtttcagGGAAATCATGCACGCCATGTGGAAACCCCAGAAATTCAAGTACATATACTTAATGGCCACACTCTACGTTTTCACTCTAACACTTCCCTCAGCTTCCGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G17810.1 (Glycine max), 3'ss of exon 7
aagaatgaagagaactagtgtaataaat-tcatttctagtct--tgagtttcggataagaaaaatgggttctgatccgtgaagggt--gacggaatatgtttcagGGAAATCATGCACGCCATGTGGAAACCCCAGAAATTCAAGTACATATACTTAATGGCCACACTCTACGTTTTCACTCTAACACTTCCCTCAGCTTCCGCC
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-----ccaatgtccctattattattattattattattattatgattattccttgatccttgagttgagtgtaaagtaatgaagaaacgagtgacaaatgttgcagAGAGATTATGCACGCCATGTGGAAGCCACAGAAGTTCAAGTACATATACTTGCTGGCCACTTTGTACGTTTTCACACTAACGATTCCTTCTGCTGCTGCC
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G42640.1 (Glycine max), 3'ss of exon 6
aagaatgaagagaactagtgtaataaattcatttctagtcttgagtttcggataagaaaaatgggttctgatccgtgaagggtga-cggaatatgtttcagGGAAATCATGCACGCCATGTGGAAACCCCAGAAATTCAAGTACATATACTTAATGGCCACACTCTACGTTTTCACTCTAACACTTCCCTCAGCTTCCGCC
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agaaattccaatgtccctattattattattattattatgatt-attccttgatccttgagttgagtgtaaagtattgaagaaagggtgacaaatgttgcagAGAGATTATGCACGCCATGTGGAAGCCACAGAAGTTCAAGTACATATACTTGCTGGCCACTTTGTATGTTTTCACTCTAACGATTCCTTCTGCTGCTGCC
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G28310.1 (Glycine max), 3'ss of exon 6
aagaatgaagagaactagtgtaataaat-tcatttctagtcttgagtttcggataagaaaaatgggttctg-atccgtgaagggtgacggaatatgtttcagGGAAATCATGCACGCCATGTGGAAACCCCAGAAATTCAAGTACATATACTTAATGGCCACACTCTACGTTTTCACTCTAACACTTCCCTCAGCTTCCGCC
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--ttattattattattattattattattattattattattattattattattattattattatcttttgtgcataaggtgataatggtgacaaatgttgcagAGAGATTATGCATGCCATGTGGAAGCCCCAAAAGTTCAAGTACATCTACTTGCTGGCCACTTTGTACGTTTTCACGCTAACGATTCCGTCAGCTGTCGCC
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G09100.1 (Glycine max), 3'ss of exon 6
aagaatgaagagaactagtgtaataaattcatttctagtcttgagtttcggataagaaaaatgggttctg-atccgtgaagggtgacggaatatgtttcagGGAAATCATGCACGCCATGTGGAAACCCCAGAAATTCAAGTACATATACTTAATGGCCACACTCTACGTTTTCACTCTAACACTTCCCTCAGCTTCCGCC
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-ccaattctagaaatttcaatttcaatgttaatttttattgtgattattattttttatagatcttttgtgcataaagtgataatggtgacaaatgttgcagAGAGATTATGCATGCCATGTGGAAGCCCCAAAAGTTCAAGTACATCTACTTGCTGGCCACTTTGTACGTTTTCACGCTAACGATTCCGTCCGCCGTCGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcggataagaaaaatgggttctgatccgtgaagggtgacggaatatgtttcagGGAAATCATGCACGCCATGTGGAAACCCCAGAAATTCAAGTACATATACTTAATGGCCACACTCTACGTTTTCACTCTAACACTTCCCTCAGCTTCCGCC
ttctgat putative branch site (score: 3)
ataagaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagaatgaagagaactagtgtaataaattcatttctagtcttgagtttcggataagaaaaatgggttctgatccgtgaagggtgacggaatatgtttcagGGAAATCATGCACGCCATGTGGAAACCCCAGAAATTCAAGTACATATACTTAATGGCCACACTCTACGTTTTCACTCTAACACTTCCCTCAGCTTCCGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - -aagagaa
- - - - - - - - - - -aataaat
- - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatcc