Sequence
atgc intronic sequence ATGC exonic sequence...attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGACAAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g00600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G27570.1 (Glycine max), 3'ss of exon 2
--attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGAC---AAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG
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tgtctgaatgagttaatattgttattttctttctgcatgaactgaagccacatggacagatccaattcacaa-tcttagaggaatttgtgttctatt-gcagGACTAGAAGGTGATGCATCTGGTAGGTCCAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTAACAGGTGT---
upper sequence: Vv08s0040g00600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G30540.1 (Glycine max), 3'ss of exon 2
-----attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGAC---AAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG
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ttctgtctgactgagttaatattgatattttcattgtacatgaactgaagctacaaagatagttccaatt----acaatctcaggaatttgtgttctatt-gcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT---
upper sequence: Vv08s0040g00600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G30550.1 (Glycine max), 3'ss of exon 2
--attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGAC---AAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG
| | ||| | | | | | | |||||| || |||| | | | |||| | ||| | | |||| | || ||||||| ||| ||||| | ||||||||| ||||||| |||||||||||||||| ||||||||||||| | |||||||||||||| | | |||||||
tgtctgactgagttaatattgatattttctttgtacatgaactgaagctacaaagatagatccaatt-tacaatctcagaggaatttgtgttctatt-gcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT---
upper sequence: Vv08s0040g00600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G27580.1 (Glycine max), 3'ss of exon 2
-attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGACAAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG---
|| | || ||| | | | | | | ||||| || || | ||| || ||||| | ||| || | ||| | | ||| ||||| | ||||||||| ||||||| |||||| ||||||||| ||||||||||||| | |||||||||||||| | | ||||||||||
aatactgcactttatttcatgttattt----ttacatgaattgaagttaaaatgatggatacaattcaatctctgagtaatttgtattctatttaaatgtcaagAAGGTGATGCATCTGGTAGGTCCAAGCAGACCAGAAGCGAAAAGAAGAGTCGCAAGGCAATGCTCAAACTTGGAATGAAACCTGTCACAGGTGTCAGTCG
upper sequence: Vv08s0040g00600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G27580.2 (Glycine max), 3'ss of exon 2
attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGACAAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG------
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--actgcactttatttcatgttattt----ttacatgaattgaagttaaaatgatggatacaattcaatctctgagtaatttgtattctatttaaatgtcaagaagGTGATGCATCTGGTAGGTCCAAGCAGACCAGAAGCGAAAAGAAGAGTCGCAAGGCAATGCTCAAACTTGGAATGAAACCTGTCACAGGTGTCAGTCGTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGACAAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG
tataattcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGACAAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - caaatta
- - - - - - - - - caatctc
- - - - - - - - - - - - - - - - -tatgaac
- - - - - - - - - - - - - - - - - - - - - - agtagaaa