Sequence
atgc intronic sequence ATGC exonic sequence...ttgtacacagcatagttctttcctctcaaattggtctttttaaaatcttttccatgtgaatattagattttgatatttattgtaataactgtcattctagATGGCATTTTCTCCGGCGCTAAGCAGAGAATTTCGTCCCTATAAACCAGACCCAGCTCCACTACTACATATCTGTTCTACTTGGGAAGTTCAACCCTATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g02320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G084984_T02 (Zea mays), 3'ss of exon 2
----------------------------------------------------------------------------------ttgta----cacagcatagttctttcctctcaaattggtctttttaaaatcttttccatgtgaatattagattttgatatttat-------tgtaataactgtcattctagATGGCATTTTCTCCGGCGCTAAGCAGAGAATTTCGTCCCTATAAACCAGACCCAGCTCCACTACTACATATCTGTTCTACTTGGGAAGTTCAACCCTATG
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gtaagttgtttcatcaccctctttctgatcattaattcgtcatgcccgtttggttgtttcttgatccccatacctgcgtagtctgtattagcataatgtagtaatattttctagatgtacattcttttaattataatgccactgcatttagtgtgtttattcttctctacatttgtgtttgggatttctgcagATGACGTTCACTCCTGCACTGAGCAGAGAATTTCGCCCCTATAAACCAAATCCTGCTCCACTGCTTCACATATGCTCCGCTTGGAACATTCCACCACACG
upper sequence: Vv05s0049g02320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G33470.1 (Glycine max), 3'ss of exon 3
ttgtacacagcatagttctttcctctcaaattggtctttttaaaatc-ttttccatgtgaatattagattttgatatt-tattgtaataact-gtcattctagATGGCATTTTCTCCGGCGCTAAGCAGAGAATTTCGTCCCTATAAACCAGACCCAGCTCCACTACTACATATCTGTTCTACTTGGGAAGTTCAACCCTATG
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--atgc-taatatcactaaataggcacaacagggattttacactacagctttcttttggagtgttagacttgttcattatatactattacctcattgatgcagATTACATTTTCTCCAGCATTAAGCAGGGAATTTCGTCCTTATAAACCCGATCCAGGTCCACTACTGCATATTTGTTCTCTTTGGGAAGTTCAACCAAATG
upper sequence: Vv05s0049g02320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G34120.1 (Glycine max), 3'ss of exon 3
-ttgtacacagcatagttctttcctctcaaattggtctttttaaaatcttttccatgtgaatattagattttgatatttattgtaataact-gtcattctagATGGCATTTTCTCCGGCGCTAAGCAGAGAATTTCGTCCCTATAAACCAGACCCAGCTCCACTACTACATATCTGTTCTACTTGGGAAGTTCAACCCTATG
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tttatattcaatg-gcttataggatagtaaaggaatactttctaactctttcttttg-gagtgttagacttgttcattatatattatacctcatcactgcagATTACATTTTCTCCAGCATTAAGCAGGGAATTTCGTCCTTATAAACCTGATCCAGGTCCACTACTGCATATTTGTTCTCTTTGGGAAGTTCAACCAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttccatgtgaatattagattttgatatttattgtaataactgtcattctagATGGCATTTTCTCCGGCGCTAAGCAGAGAATTTCGTCCCTATAAACCAGACCCAGCTCCACTACTACATATCTGTTCTACTTGGGAAGTTCAACCCTATG
taataac putative branch site (score: 1)
tcattct putative PPT
atgtgaatattagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtacacagcatagttctttcctctcaaattggtctttttaaaatcttttccatgtgaatattagattttgatatttattgtaataactgtcattctagATGGCATTTTCTCCGGCGCTAAGCAGAGAATTTCGTCCCTATAAACCAGACCCAGCTCCACTACTACATATCTGTTCTACTTGGGAAGTTCAACCCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- gtacaca
- - - - - - - - - - tcctctc