Sequence
atgc intronic sequence ATGC exonic sequence...taaaataaacaaacatcacaagcaccgtcaatacaatatggaggtttcaaatatcagaaataattgcagctttttgttggaataatcttctgttttgcagGTTCTTCAGCGAAAGACAGAGGAAGCTGCTATGGCCACCAAAAGGCTAAAAGAGTTGCTAGAAGCTCGCAAGTCTTCAGCACGTGAAAACTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 17
taaaataaacaaacatcacaagcaccgtcaatacaatatggaggtttca-------aatatcagaaataattgcagctttttg----ttggaataatcttctgttttgcagGTTCTTCAGCGAAAGACAGAGGAAGCTGCTATGGCCACCAAAAGGCTAAAAGAGTTGCTAGAAGCTCGCAAGTCTTCAGCACGTGAAAACTCAG
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-----------catatcttacttagctatataattacgtgtaagtttttccctcatattatcatgtctatttataaaatattaaatatcaaagttttgcatctttatgcagGTTTTGCAGAGGAAGACTGAAGAAGCTGCGATGGCTACCAAAAGGCTGAAAGAGTTACTAGAGGCTCGGAAATCATCAGGACGTGACAACTCAG
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA06G04520.1 (Glycine max), 3'ss of exon 18
-taaaataaacaaacatcacaagc-accgtcaatacaatatggaggtttcaaatatcagaaataattgcagctttttgttggaataatct-tctgttttgcagGTTCTTCAGCGAAAGACAGAGGAAGCTGCTATGGCCACCAAAAGGCTAAAAGAGTTGCTAGAAGCTCGCAAGTCTTCAGCACGTGAAAACTCAG
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attcagagaaccaacatttgatgttaatgttgact---tttttgattgtcatggatgatacaggattaactgcttgtgttaaataaatgtgtatatctttcagGTTCTTCAGAGAAAAACTGAAGAAGCTGCAATGGCCACCAAGAGGTTAAAGGAGTTGCTAGAAGCACGTAAAACTTCCAGCCGAGAAACTTTAG
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA04G04380.1 (Glycine max), 3'ss of exon 18
-taaaataaacaaacatcacaagcaccgtcaatacaatatggaggtttcaaatatcagaaataattgcagctttttgttggaataatct-tctgttttgcagGTTCTTCAGCGAAAGACAGAGGAAGCTGCTATGGCCACCAAAAGGCTAAAAGAGTTGCTAGAAGCTCGCAAGTCTTCAGCACGTGAAAACTCAG
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ttctgagaaccaacaattgatgttaatgttgacttt-tgtgattgtcatggatgatacaag-attaactgcttgtgtttaaataaatgtgtatatctttcagGTTCTTCAGAGAAAAACTGAAGAAGCTGCAATGGCCACCAAGAGGTTAAAGGAGTTGTTAGAAGCACGTAAAACTTCCAGCCGAGAAACTTTAG
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA17G35780.1 (Glycine max), 3'ss of exon 17
----taaa-ataaacaaacatcacaagcaccgtcaatacaatatggaggtttcaaatatcagaaataattgcagctttttgttggaataatcttctgttttgcagGTTCTTCAGCGAAAGACAGAGGAAGCTGCTATGGCCACCAAAAGGCTAAAAGAGTTGCTAGAAGCTCGCAAGTCTTCAGCACGTGAAAACTCAG
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tgcataaccatcaatgttgtttttgacttctgcggctatcat-cataactgatacttttcataatgaattattatatctaatgactgaaaatttccttt----agGTCCTTCAAAGAAAGACTGAAGAAGCTGCAATGGCCACCAAGAGGTTAAAGGAGTTGTTAGAAGCTCGTAAATCTTCCAGCCGAGACACTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaaatatcagaaataattgcagctttttgttggaataatcttctgttttgcagGTTCTTCAGCGAAAGACAGAGGAAGCTGCTATGGCCACCAAAAGGCTAAAAGAGTTGCTAGAAGCTCGCAAGTCTTCAGCACGTGAAAACTCAG
tcttctgtttt CT-rich tract
atatcagaaataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaataaacaaacatcacaagcaccgtcaatacaatatggaggtttcaaatatcagaaataattgcagctttttgttggaataatcttctgttttgcagGTTCTTCAGCGAAAGACAGAGGAAGCTGCTATGGCCACCAAAAGGCTAAAAGAGTTGCTAGAAGCTCGCAAGTCTTCAGCACGTGAAAACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
-aaaataa
- - - - -caaacat
- - - - - - - - cacaagc
- - - - - - - - - - - - - - -aatacaa
- - - - - - - - - - - - - - - - - - - - - - - -caaatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaataa