Sequence
atgc intronic sequence ATGC exonic sequence...catgtcctctcttgttcattgaattctcgtatccagttggtttggtgctatgctaattttaatgctgaatttatgtcttgtttttttatattgtttccagAATCACAAACTCCCGCTTTCTTATAATTTCCATAAGTATATGGTTCGGAGCATGGAAGATGAATTTCATGGAATTGTGGGGATTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g00260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g07912.1 (Oryza sativa), 3'ss of exon 7
--------catgtcctctcttgttcattgaattctcgtatccag--------ttggtttg-----gtgctatgctaattttaatg--ctgaatttatgt--------cttgtttttttatattgtttccagAATCACAAACTCCCGCTTTCTTATAATTTCCATAAGTATATGGTTCGGAGCATGGAAGATGAATTTCATGGAATTGTGGGGATTAG
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gttagaactctgacttctattgattgtttcaattttccgttcagatgcatatttattttgagaaagtgtttaaatgcttttgatttcctacattcctctgcattgtgcttacttgtcaattttctcatcagTACCATAAGTTGCCACACTCGTATAATTTCCACAAATACATGGTACGGAGCATGGAAGATGATTATAATGGAAGTGTTGGCATCAG
upper sequence: Vv12s0035g00260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G29080.1 (Glycine max), 3'ss of exon 7
-catgtcctctcttgttcattgaattctcgtatccagttggtttggtgctatgctaattttaatgctgaatttatgtcttgtttttttatattgtttccagAATCACAAACTCCCGCTTTCTTATAATTTCCATAAGTATATGGTTCGGAGCATGGAAGATGAATTTCATGGAATTGTGGGGATTAG
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gtaaggattaacttgcttgtc--atcttccttaccagct----ttattccacaccacttct----ctaa--ttgttctctgctttgtaa----atttaaagGAACACAAATTGCCG--TTCTTATAATTTCCATCAATATATGGTTCGAAGCATGGAAGATGAATTTCATGGCATTCTAGGAATAAG
upper sequence: Vv12s0035g00260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G20120.1 (Glycine max), 3'ss of exon 7
catgtcctctcttgttcattgaattctcgtatccagttggtttggtgctat----gctaattttaatgctgaatttatgtcttgtttttttatatt------gtttccagAATCACAAACTCCCGCTTTCTTATAATTTCCATAAGTATATGGTTCGGAGCATGGAAGATGAATTTCATGGAATTGTGGGGATTAG
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---------tcatactataagaatttaaggattaacttg-tttgtcatcatcctcactagctttaatccacaccactagtctaattgttctctgctttgtaaatttacagGAACACAAATTGCCGTTGTCTTATAATTTCCATCAATATATGGTTCGAAGCATGGAAGATGAATTTCATGGCATTCTAGGAATAAG
upper sequence: Vv12s0035g00260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G11000.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------------------------catgtcctctc--ttgttcattgaattctcgtatccagttggtttggtgctatgctaattttaatgctgaatttatgtcttgtttttttatattgtttccagAATCACAAACTCCCGCTTTCTTATAATTTCCATAAGTATATGGTTCGGAGCATGGAAGATGAATTTCATGGAATTGTGGGGATTAG
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gtgagtaacttttttatttcgtttctcagtctttccttcaaatttaaaatataactttctagtaatttctcaagaattctcatctaatctggtagctgacatgattagtttt---ctgaatccggtcttcattactttaaaat---ttcagAAACATAATTTGCCATTTACATACAACTTCCATATGTATATGGTACGGACGATGGAAGATGAGTTTCATGGCATTGTTGGAATTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctatgctaattttaatgctgaatttatgtcttgtttttttatattgtttccagAATCACAAACTCCCGCTTTCTTATAATTTCCATAAGTATATGGTTCGGAGCATGGAAGATGAATTTCATGGAATTGTGGGGATTAG
ttgtttcc CT-rich tract
aatttatgtcttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgtcctctcttgttcattgaattctcgtatccagttggtttggtgctatgctaattttaatgctgaatttatgtcttgtttttttatattgtttccagAATCACAAACTCCCGCTTTCTTATAATTTCCATAAGTATATGGTTCGGAGCATGGAAGATGAATTTCATGGAATTGTGGGGATTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - tcctctc
- - - - - - - - - - - - - - gtatcca
- - - - - - - - - - - - - - - - - - - ggtttgg
- - - - - - - - - - - - - - - - - - - - - - - -ctatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgctg