Sequence
atgc intronic sequence ATGC exonic sequencegttattgcaaattatcttgtcttttctcttttgggatttattcctagaaaattgtatctgaaatactgaaataagtcttgcagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM5G831712_T02 (Zea mays), 3'ss of exon 12
gttattgcaaattatcttgtcttttctcttttgg--gatttattc----ctagaaaattgtat-----ctgaaatactgaaataagtcttg--------cagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
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--acttatgggttatgttgggtttttaactttagccaacttgcttgggattaaaaggctttattgttgttcctctattaaagtaagcctttttttttgccagAGCTGCTATGATGGAATTTGAAATTAATATGTCAGAAATGCCTCTTGGGAAGCTAAGCAAGGAAAATATTGAGAAAG
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA03G31820.1 (Glycine max), 3'ss of exon 13
gttattgcaaattatcttgtcttttctcttttgggatttattcc-tagaaaattgtatctgaaatactgaaataagtcttgcagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
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gttatagtcaaatacctcttcattt---tattagaatatattttgtgcaatactgagtct------------ttagttttgtagAGCTGCCATGATGGAATTTGAGATTAATATGTCTGAAATGCCACTTGGGAAACTGAGCAAAAGCAATATCCAAAAGG
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 12
gttattgcaaattatcttgtcttttctcttttgggatttattcc-tagaaaattgtatctgaaatactgaaataagtcttgcagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
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gttatagtcaaatacctcttcattt---tattagaatatgttttgtgcaatactgagtct------------ttagttttatagAGCTGCCATGATGGAATTTGAGATCAATATGTCTGAAATGCCACTTGGGAAATTGAGCAAAAGCAACATCCAAAAGG
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT2G31320.1 (Arabidopsis thaliana), 3'ss of exon 11
gttattgcaaattatcttgtctt--ttctcttttgggatttattcctagaaaattgtatctgaaatactga-aataagtcttgcagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
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---gttagaaacttatttgccattgtcttcttctcctcttctctccctagaaactgtatgaagtaacctaataattacttccgcagATCTGCAATGATGGAGTTCGAGATAAATATGTCAGAGATGCCACTTGGGAAGCTCAGCAAACATAATATACAGAAGG
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: PP1S114_181V6.1 (Physcomitrella patens), 3'ss of exon 14
------------------------gttattgcaaattatcttgtcttttctcttttgggatttattcctagaaaattgtatctgaaatactgaaataagtcttgcagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
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atcagtggaggtgctcgatttcatgtggttgtagttcgtgcaaattcttgttctatgatgcttcttacgcttcacttgtttccttgccattca-------tccgcagGGCTGCTATGATGGAATTCGAAATTAACATGTCAGAAATGCCTTTAGGCAAGCTGAGCAAACGCCATATTGAGCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgggatttattcctagaaaattgtatctgaaatactgaaataagtcttgcagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
aaatactgaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattgcaaattatcttgtcttttctcttttgggatttattcctagaaaattgtatctgaaatactgaaataagtcttgcagATCTGCCATGATGGAATTTGAAATTAATATGTCAGAAATGCCACTTGGAAAGCTGAGTAAAAGTAACATACAGAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA