Sequence
atgc intronic sequence ATGC exonic sequence...ttggtcatggttgggggcctccattttcttgatattaatctttttgtttaaaggctttatatcttgttctgatgttctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 11
-ttggtcatggttgggggcctccattttcttgatattaatctttttgtttaaaggctttatatcttgttctgatgtt-ctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
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aatggtttcagtcgcagatatcgaattgttt-atatctatttttgggccttaacattatcc-tgatattagaatgttgccatgtgcgacttcacttgtccagAATGTGCCCCCTGCCATTCTCCTTAGGTTTCTGCGGGAGCATAGATCAGAATGGGCAGACAATAATATGGATGCTTACACAGCTGCTGCTATTAAAGTTG
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 11
--ttggtcatggttgggggcctccattttcttgatattaatctttttgtttaaaggctttat-atcttgttctgatgttctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
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aattggtttcagttgcagatattgaattg-tcaatatcgatttttaggcttaacattatcctgatatttgactgttgccatgt--gccatttctcttgcccagAATGTGCACCCTGCCATTCTCCTTAGGTTCCTGCGGGAGCATAGATCAGAATGGGCAGACAACAATATGGATGCTTACACAGCTGCTGCTATTAAAGTTG
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G21610.1 (Glycine max), 3'ss of exon 12
---ttggtcatggttgggggc--ctccattttcttgatattaatctttttgtttaaaggctttatatcttgttctgatgttctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
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gaatttgtcaaactgaaatacgatttcagttgca-gatatccaattgtttatattatttcctgatatgtaa--ctgttgccatgt--gccatttctcttgtccagAATGTGCCCCCTGCCATTCTCCTAAGATTCCTGCGGGAGCATAGATCAGAATGGGCAGACAACAATATGGATGCTTACACAGCTGCTGCTATTAAAGTTG
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 11
-ttggtcatggttgggggcctccattttcttgatattaatctttttgtttaaaggctttatatcttgttctgatgtt-ctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
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aatggtttcagttgcagatatccaattgttt-atatcgatttttaggtcttaacattatcc-tgatatttgactgttgccatgtgccatttctcttgtccagAATGTGCCCCCTGCCATTCTCCTAAGGTTCCTGAGGGAGCATAGATCAGAATGGGCAGACAACAATATGGATGCTTACACAGCTGCTGCTATTAAAGTCG
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 11
ttggtcatggttgggggcctccattttcttgatattaatctttttgtttaaaggctttatatcttgttctgatgttctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
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---------gtcagtg--caccattttttttata--gatcaactgat--gattgtttcaacactttttcaccttctttttatgggattttgcacctacagAATGTTCCTCCGGCGATCCTGCTTCGGTTTCTGAGGGAGCATAGGTCAGAATGGGCTGACAACAACATTGATGCGTATCTAGCAGCAGCAGTTAAAGTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttaaaggctttatatcttgttctgatgttctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
ttctgat putative branch site (score: 3)
tcattttc putative PPT
actatttatcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggtcatggttgggggcctccattttcttgatattaatctttttgtttaaaggctttatatcttgttctgatgttctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - ggttggg
- - - - - - - - gcctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatgt