Sequence
atgc intronic sequence ATGC exonic sequence...actggacacattttctgggtccaatgtcacaaggcttctatctcaacatacctttatatctttatatgatccatctgacttcaaattttctattttgcagCAATTGTTGATTTCTTCTAGAAATCTAGAATTCTTTACCAGTGGCTACCGCTACCTTATTCAGATTCTTCCAGCTGCAGTTGTTGCTCCGATGTATTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g01190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g11946.2 (Oryza sativa), 3'ss of exon 5
--actggacacattttctgggtccaatgtcacaaggcttctatct-caacatacctttatatctttatatgatccatctgacttcaaattttctattttgcagCAATTGTTGATTTCTTCTAGAAATCTAGAATTCTTTACCAGTGGCTACCGCTACCTTATTCAGATTCTTCCAGCTGCAGTTGTTGCTCCGATGTATTTCT
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cagctc--catgttttttgaatgttcagatggaaacttatgatgtgtgagtcatttttctaagcaggc-cgatttatattatcttttcctgttctgtttgcagGAATTGCTAATAGCATCTCGTAATCTGGAGTTTTTCACCAATGGCTACCGTTATTTAATCCAGATCCTGCCAGCTGCAGTTGTTGCTCCGATGTACTTCT
upper sequence: Vv19s0085g01190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G074103_T02 (Zea mays), 3'ss of exon 5
------actggacacattttctgggtccaatgtcacaaggcttctatctcaacatacctttatatctttatatgatccatctgacttcaaattttctattttgcagCAATTGTTGATTTCTTCTAGAAATCTAGAATTCTTTACCAGTGGCTACCGCTACCTTATTCAGATTCTTCCAGCTGCAGTTGTTGCTCCGATGTATTTCT
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aattcagctgctctgtatcttcatattta--gccataaa-ttcctactgttaaatatttttccaggtt-gtccagttcatatatttt--attttattatgtaccagGAATTGCTGATAGCTTCTCGGAATCTGGAGTTTTTCACCAATGGTTATCGATATTTAATTCAGATTCTGCCAGCTGCAGTTGTTGCTCCAATGTACTTCT
upper sequence: Vv19s0085g01190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G17110.1 (Glycine max), 3'ss of exon 7
actggacacattttctgggtccaatgtcacaaggcttctatctcaacatacctttatatctttatatgatccatctgacttcaaat----tttctattttgcagCAATTGTTGATTTCTTCTAGAAATCTAGAATTCTTTACCAGTGGCTACCGCTACCTTATTCAGATTCTTCCAGCTGCAGTTGTTGCTCCGATGTATTTCT
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--ttgcagcatcacttct-tttactttattaagtcatgtaatgcagttttatcctctaacttgcgataacataa-tgatgtatggtgttacttattttttacagCAATTGTTGATTGCTTCCAGAAATCTGGATTTCTTCACCAGTGGCTACCGCTATCTAATTCAAGTTCTTCCTGCTGCTGTTGTTGCCCCCCTGTATTTCT
upper sequence: Vv19s0085g01190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G54350.1 (Arabidopsis thaliana), 3'ss of exon 4
actggacacattttctgggtccaatgtcacaaggcttctatctcaacatacctttatatctttatatgatccatctgacttca---aattttctattttgcagCAATTGTTGATTTCTTCTAGAAATCTAGAATTCTTTACCAGTGGCTACCGCTACCTTATTCAGATTCTTCCAGCTGCAGTTGTTGCTCCGATGTATTTCT
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------------------gtaaaatttctcgagctttct-tatccatttatatatatatctatagattgcacaataaattacattcaattttttcacctgcagGAATTGCTGATAGCATCTAGAAACCTAGAATTCTTCACCGATGGATATCGCTACCTCATTCAGATTCTTCCAGTTGCTGTTGTTGCCCCAATGTATTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatacctttatatctttatatgatccatctgacttcaaattttctattttgcagCAATTGTTGATTTCTTCTAGAAATCTAGAATTCTTTACCAGTGGCTACCGCTACCTTATTCAGATTCTTCCAGCTGCAGTTGTTGCTCCGATGTATTTCT
atctgac putative branch site (score: 3)
ttttctatttt putative PPT
tttatatctttatatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actggacacattttctgggtccaatgtcacaaggcttctatctcaacatacctttatatctttatatgatccatctgacttcaaattttctattttgcagCAATTGTTGATTTCTTCTAGAAATCTAGAATTCTTTACCAGTGGCTACCGCTACCTTATTCAGATTCTTCCAGCTGCAGTTGTTGCTCCGATGTATTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - -tttctgg
- - - - - - - - - - -caatgtc
- - - - - - - - - - - - - - - - - - - - -ctcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatctg