Sequence
atgc intronic sequence ATGC exonic sequence...cttttacatcgttgaaactattgtatcatctgattctgtgattttgtaactttcatgggaaggtatttatgatctgcatttttcctttctttgttactagAAACTTTGTCAATGAAGGGATTGACTTTGAATTGCATGGATCGCAAATCAGAAGCATATGAACTTGTCCGGTTAGGACTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G01580.2 (Glycine max), 3'ss of exon 2
cttttacatcgttgaaactattgtatcatctgattctgtgattttgtaactt--tcatgggaaggtatttatgatctgcatttttcctttctttgttactagAAACTTTGTCAATGAAGGGATTGACTTTGAATTGCATGGATCGCAAATCAGAAGCATATGAACTTGTCCGGTTAGGACTAAAG
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--attttcttacagaagttgttttctctttccatcttttaattatttagtttcattgtgtttttttcttacttatgtgtctgttcccccttctggttgatagAAACTTTGTCAATGAAGGGTTTGACATTAAATTGCATGGATCGTAAGTCTGAGGCATATGAACTGGTTCGCCAAGGTTTGAAG
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G03850.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------------------------cttttacatcgttgaaactattgtatcatctgattctgtgattttgtaactttcatgggaaggtatttatg-atctgcatttttcctttctttgttactagAAACTTTGTCAATGAAGGGATTGACTTTGAATTGCATGGATCGCAAATCAGAAGCATATGAACTTGTCCGGTTAGGACTAAAG
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gtatactctttttttggtgattattttataattttatttcccttcttaattgtttaagtcatgcaagaaatgcaatgttagcccctccctcccttccccttttctatctattatttcttat--ttgcagcatattttatttctttggtcatagtttttatttatgtgtccgttcctgtttcttgatgatagAAACTTTATCGATGAAGGGTTTGACATTAAATTGCATGGATCGTAAGTCCGAAGCATATGAACTTGTTCGTCAAGGATTAAAG
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G43760.1 (Glycine max), 3'ss of exon 2
-cttttacatcgttgaaactattgtatcatctgattctgtgattttgtaactttcatgggaaggtatttatgatctgcatttttcctttctttgttactagAAACTTTGTCAATGAAGGGATTGACTTTGAATTGCATGGATCGCAAATCAGAAGCATATGAACTTGTCCGGTTAGGACTAAAG
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ttacagaagttgtttttctctttccgccttttaattattttgtttttttgtgttttttcttct-tcttatttatgtgtctgttcccccttctggttgatagAAACTTTATCAATGAAGGGTTTGACATTAAATTGCATGGATCGTAAGTCTGAGGCATACGAACTGGTTCGCCAAGGATTGAAG
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G22180.1 (Glycine max), 3'ss of exon 2
--cttttacatcgttgaaactattgtatcatctgattctgtgattttgtaactttcatgggaaggtatttatg-atctgcatttttcctttctttgttactagAAACTTTGTCAATGAAGGGATTGACTTTGAATTGCATGGATCGCAAATCAGAAGCATATGAACTTGTCCGGTTAGGACTAAAG
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cccttccccatt-ttctatctattatttcttat--ttgcagcatattttatttctttggtcataatttttatttatgtgtccgttcctgtttcttgatgatagAAACTTTATCGATGAAGGGTTTGACATTAAATTGCATGGACCGTAAGTCTGAAGCATACGAACTTGTTCGGCAAGGATTAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaactttcatgggaaggtatttatgatctgcatttttcctttctttgttactagAAACTTTGTCAATGAAGGGATTGACTTTGAATTGCATGGATCGCAAATCAGAAGCATATGAACTTGTCCGGTTAGGACTAAAG
ttgtaac putative branch site (score: 2)
tctgcatttttccttt putative PPT
tatttatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttacatcgttgaaactattgtatcatctgattctgtgattttgtaactttcatgggaaggtatttatgatctgcatttttcctttctttgttactagAAACTTTGTCAATGAAGGGATTGACTTTGAATTGCATGGATCGCAAATCAGAAGCATATGAACTTGTCCGGTTAGGACTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - -gaaacta
- - - - - - - - - - - - - - -ctgattc
- - - - - - - - - - - - - - - - - - - - - - - - - -ttcatgg