Sequence
atgc intronic sequence ATGC exonic sequence...cattctcttttcattctgcttggatttttatgtcttaattgaaacagtaatccttcttgcaatggcatgattttgatgatttttttttcacttatttcagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g01150.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G119791_T03 (Zea mays), 3'ss of exon 6
-cattctcttttcattctgctt---ggatttttatgtcttaattgaaacagt--aatccttcttgcaatggcatgattttgatgatttttttttcacttatttcagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
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gtaagagatctgcatattgtttcatggatctgagtttgtgatataaactaattttatgactcatggaaggtcatgctcacttatattttacatgggttgctcacagGAACTTCCAAATCCTGTCTACCTTTTTCAAGGTATAGTTTTAAGAAGAGGTGCTAAAGGGACTGGCATGAAGTCCATAGAACTTGCCCTTTCCATGTGTG
upper sequence: Vv14s0068g01150.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G05340.1 (Glycine max), 3'ss of exon 8
---------------------------------cattctctttt-cattctgcttggatttttatgtcttaattgaaacagtaatc-cttcttgcaatggcatgattttgatgattttt--ttttcacttatttcagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
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gtgaaaatctgttctttgataactattttattgaatgctttttggtatatgagctcaatacgatgggagcaactggatacttagttactttctagaatagatttatccgcattcttttgaactaccttttatgacagACTATACCCAATCCAGTCTATCTCTTCCAAGGAATTGTACTACGTCGAGGTGCCAAAGGAACTGGAATGAAATCTATTGAGTTAGCACTCTCCATGTGTG
upper sequence: Vv14s0068g01150.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G27540.1 (Glycine max), 3'ss of exon 1
---------cattctcttttcatt--ctgcttggatttttatgtcttaattgaaacagtaatccttcttgcaatggcatg-attttgatgatttttttttcacttatttcagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
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gtaagaatctgttctttgataactattttattgaatgtttttcggtatatgagctcaatacagatgggagcaactggatacatagttacttttgaactaccttttatgacagACTATACCCAATCCAGTATATCTCTTCCAAGGAATTGTACTACGCCGTGGTGCCAAAGGAACAGGAATGAAATCTATTGAGTTAGCACTCTCCATGTGTG
upper sequence: Vv14s0068g01150.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G08660.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------------------------------cattctcttttcattctgcttggatttttatgtcttaattgaa---acagtaatcc---ttcttgcaatggc------atgattttgat---gattttt-------ttttcacttattt-----cagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
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gtatgattaccgttttctttctttcttttttctacatcattacttgttttgtttttacaacttccactgtggtcgtttatccataacataattgaagagactgaaatctgaatccttgcggtcgcttttacatggattttatcccaattcttacacgactttgaatttatcttgtaacagCGTATACCAAACCCTGTTTATCTTTTCCAAGGAATTGTCCTACGCAGAGGTGCCAAAGGAACCGGGATGAAATCCATTGAACTAGCATTGTCCATGTGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaatccttcttgcaatggcatgattttgatgatttttttttcacttatttcagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
ttttgat putative branch site (score: 4)
tttttttttcacttat putative PPT
attttgatgatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattctcttttcattctgcttggatttttatgtcttaattgaaacagtaatccttcttgcaatggcatgattttgatgatttttttttcacttatttcagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
cattctc
- - - - - - - - tgcttgg
- - - - - - - - - - - - - - - - - - - - gaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgat