Sequence
atgc intronic sequence ATGC exonic sequence...gaaatcattattcctgcatttttttttctttctgttgattatgggacctactttgatccactagaagggatgctggtgttaatttatcttatgactgcagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os05g29050.1 (Oryza sativa), 3'ss of exon 7
gaaatcattattcctgcatttttttttctttctgttgattatgggacctactttgatccactagaaggga-tgctggtgttaatttatcttatgactgcagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
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-ttatcacatgacttgaaaaagcaaaatgagtcaaaaactagatggctcataaaaaccgacagttactgactgtctactctgaattttggtaattatgcagATCTACATTCTTTTGTACAAGGAAGTTGCTCTTGCATTGAAAATCAACAGCTTGTACAGTAAACAAAAGCTACTTAACATTCATGAGAATGTAAAAGTTC
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 7
gaaatcattattcctgcatttttttttctttctgttgattatgggacctactttgatccactagaagggatgctggtgttaattt-atcttatgactgcagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
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gaaaaaaagaacacagaaaatagcatcaaatggattcag-actttctttataattacttattatcttggatgactttgaaattttgaattcatttttgcagATTTACATTCTCTTGTACAAGGAAGTTGCTCTTGCTTTGAAAATTAACAGCTTATACAGTAAACAGAGGCTACTTAACATTCATGAAAATGTTAAAGTTC
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 8
-gaaatcattattcctgcatttttttttctttctgttgattatgggacctactttgatc-cactagaagggatgctggtgttaatttatcttatgactgcagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
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tagttacaaaggtact-cagctatgatgtatgccactggg-ataatgcatgttccaattgctttatttccattgtcaagatttacatggatttttaatgcagATTTACATTCTTCTCTACAAAGAGGTGGCTCTTGCTTTGAAAATCAACAGTGTTTATAGCAAGAAAAAGCTTCTTAGCATTCATGAGAATGTGAGGGTAT
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G16270.1 (Glycine max), 3'ss of exon 8
-------gaaatcat-tattcctgcatttttttttctttctgttgattatgggacctactttgatccactagaagggatgctggtgttaatttatcttatgactgcagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
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tgccactgggacaatgcatgttccaattgctttatttccatgtaagtgtcaagatttacat-gacttttta------atgcagatttacatgaattttttaa-tgcagATTTACATTCTTCTCTACAAAGAGGTGGCTCTTGCTTTGAAAATAAACAGTGTTTATAGCAAGAAAAAGCTTCTTAGCATTCATGAGAATGTGAGGGTAT
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G16785.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------gaaatcattattcctgcatttttttttctttctgttgattat----gggacctactttgatccactagaagggatgctggtgttaa--tttatc----ttatgactg-------cagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
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gtacttactacagaacatgcatgtacttaatagctattat-cttctgttgtgaagcatgtctgtagtctgcaatggagatctgacttgtcaggtttggtggattactatctttcaactttttcatttttattactttctttttcagATATACATCCTTATCTACAAGGAGGTTGCTCTTGCTTTAAAGATCAACAGTGTATATAGCAAACGCAGGCTTCTTGGCATTCATGAGAATGTGCGGGTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctactttgatccactagaagggatgctggtgttaatttatcttatgactgcagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
tgttaat putative branch site (score: 3)
tgttaatttatcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaatcattattcctgcatttttttttctttctgttgattatgggacctactttgatccactagaagggatgctggtgttaatttatcttatgactgcagATTTACATTCTTCTCTACAAAGAGGTTGCTCTTGCTTTGAAAATCAACAGTGTCTACAGTAAAAGGAAGCTTCTTAGCATTCATGAGAATGTGAGAGTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
-aaatcat
- - - - - -tcctgca
- - - - - - - - - - - - - - - -ctgttga
- - - - - - - - - - - - - - - - - - - ttatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggatgct