Sequence
atgc intronic sequence ATGC exonic sequence...ttcatttaggtttactagttatacagctccaaattatatattttcatgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 4
ttcatttaggtttactagttatacagctc-caaatt---atatattttcatgattccttccttttcat-tgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
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--gttatggactgaaaggttacaccacttacatattagcatttatatatatgagatattcgatcatgcatattttgcttattgaaaaaaat---attattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G01400.1 (Glycine max), 3'ss of exon 3
----ttcatttaggttt---actagttatacagctccaaattatatattttcatgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
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tttttttctttaatcttttaacaagttttgggaaattgtagcgtttatatatgtgagatattcgtgcatattt---tgcttatagaaaagat----attattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAGTCTGTCAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAATCATCCAGATAACTATCTTTCTCACC
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G10490.1 (Glycine max), 3'ss of exon 4
--ttcatttaggtttactagttatacagctccaaattatatattttcatgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
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tttatactcggacaaattcaagaaaattgttgcaattgtattgaattgtcatacactagtgattaacatcttacatatttat--acttcaaaaaaatatcagGTGCTTGTTAGAAATATTCCACCCGACCCTGATGAATCTGTGAGTGAGCTTGTTGAGCACTTCTTTCTGGTCAATCATCCAGGTCACTATCTGACTCACC
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G22120.1 (Arabidopsis thaliana), 3'ss of exon 4
ttcatttaggtttactagttatacagctccaaattatatattttcatgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
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-----gtaagactcct-----ttcttccccttggtttaaactttaaagactgaacagctgtggccaacgatctaatacgtcgggatttg-----tgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTGGTAGAGCATTTTTTCCTGGTCAATCATCCTGATCACTACCTAACACATC
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G04340.1 (Arabidopsis thaliana), 3'ss of exon 4
ttcatttaggtttactagttatacagctccaaattatatattttcatgattccttccttttcattgcca-tgtttgtgtaatggattttggt-tatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
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--------------------gta-agattcgtttcttatcccttgctt-ttaaactcataacacagctggtactgatcttgtatgttatgacgttttggcagGTTCTTGTTAGGAATGTACCTCCGGACCCAGACGAAACTGTGAGTGAGCTTGTGGAGCATTTTTTCCTAGTTAATCACCCTGATAACTACCTCACACATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
ttttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcatttaggtttactagttatacagctccaaattatatattttcatgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - -gctccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgtt