Sequence
atgc intronic sequence ATGC exonic sequence...ccttggtaatataggcattatactgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgtattgatgcttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 5
-ccttggtaatataggcattatactgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgt-attgatgcttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG---------------------
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ttaattacagtttggtcatt-tattacccatttcttgaagatctacttttaatgtcttcaccaaaaggatcttactggatggttctcatc-atttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAGGTATTATTCTAAAGTTTTCTT
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G01940.3 (Glycine max), 3'ss of exon 5
-ccttggtaa-tataggcattatactgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgt-attgatgcttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
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tctttgttgggtgcatgcctt-tattacccattttttgaagatctacttttaatgccttcaccaaaaggatcttactggatggtccttatcattttg--tcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCGTTGCTTAAACTAGATGATCCTAATATAG
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G43540.1 (Glycine max), 3'ss of exon 5
-ccttggtaatataggcattatactgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgt-attgatgcttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
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ttaattacagtttggtcatt-tattacccatttcttgaagatctacttttaatgtcttcaccaaaaggatcttactggatggttctcatc-atttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAG
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 5
ccttggtaat--ataggcattat--actgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgtattgatg-cttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
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-attaacaattaataaacatttttagcaacataactaaataacacatttcataactgatacaac--taacacttgattaatatcctgattttttctttt--tcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 5
-ccttggtaatataggcattatactgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgtattgatgcttacttacc----tattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
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atagtcacagtttggccattct--tacatgcctatattcccatttc---ctaagatctgccttagatttcttcaagaatcttacagaacggaccttttttttcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCGGCATTGCGTAAACTCAATGATCCTAAAATAG
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G23920.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------ccttggtaatataggcattatactgcattccagttttccacttttgat-caaaggtttg---atgtcaatgatgtat-tgatgcttacttacc-tattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
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gtatgtgacttatgatgtcttatagacaacaaaccatttgacagatttacattacaatcttaa-attgtgatatattatggagtatgggagataatacaacgaattgtgaattatattaacagatattattcatctttgttgtgtttctttcagGTTAGAGATTACATTCATGTCATGGATTTAGCAGATGGACACATAGCTGCTCTGCGTAAGCTAGATGATCTCAAAATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcaaaggtttgatgtcaatgatgtattgatgcttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
tacttac putative branch site (score: 1)
cctattc CT-rich tract
atgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttggtaatataggcattatactgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgtattgatgcttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - -ggcatta
- - - - - - - - - - - - gcattcc
- - - - - - - - - - - - - - - - - tttccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtc
