Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgctctctgactctttctcatcttcctagagattgattcattatccccaaaactagttctacatttatttattcatgtcagcctcattgggattttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G17930.1 (Glycine max), 3'ss of exon 5
--------------------------------------------gtaagttgctct---ctgactctttctcatcttcctagagattgattcattatccccaaaactagttctacatttatttattcatgtcagcc-tcattgggattttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
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gtgagttgtgtttctttttctttcttaaaatgaacctacaatttctaaacttgactgagttgactccctcctcccatttgaaaactcag---aagatatgaatagataattagatattatattatactaactaactatgattccaatccc--agGTCTCTAGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCAGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04600.1 (Glycine max), 3'ss of exon 9
---------gtaagttgctctctgactcttt---ctcatcttcctagagattgattcattatcccc-----aaaactagttctacatttatttattcatgtca-gcctcattgggatt----ttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
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gtaagttgtgtgtgttcctctttcttagtgtgagcctataatttttaaaattgaatccctccccctatctgaaaactgagaagatatgaaaggagtatcatcctacctaactagatttccaatctcagGTCTCTTGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCTGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAGATTGAT
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G17910.1 (Glycine max), 3'ss of exon 5
gtaagttgc---tctctgactctttctca---------------tcttcctagagattgattcatt-------------atccccaaaacta--gttctacatttatttattcatgtcagcctcattgggattttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
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gtaagttgtgtatgtgttgctctttcttaatatgagactataaataatatctaaaattgattccctcccgctgtctaaaatctcagaagatatgattagatattatattatcctacctaactatatttccaatccc-agGTCTCTTGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCAGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G17920.1 (Glycine max), 3'ss of exon 5
gtaagttgc-tctctgactctttctcatctt---ccta--------gagattgattcattatcccca-----aaactagttctacatttatttattc-atgtca----gcctcattgggattt----tttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
|||||||| | | |||||||| | | |||| | || || || | || | ||||| | || | | | |||||| ||| | | | ||| |||||||| ||||||||||| ||| |||||||||| |||| | |||||||||||||| |||||||||||||| ||||| |||| ||||||||||| |||
gtaagttgtgtgcgttcctctttcttaatgtgagcctacaatttctaaaatggactccctccacctatctgaaaactcagaagatatgaaaagaggctatgtcatcctacctaactagattttgaatcccagGTCTCTTGGGCAGGCATCACCAAGCTTGAGTGCTTTTGCTGCAGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04590.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------gtaagttgctct--ctgactctttctcatcttcctagagattgattcattatccccaaaactagttctacatttatttattcatgtcagcctcattgggattttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
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gtaagttgtttgtttctttttctttcttaaaatcaacctacattttctaaacttgacttagctaactccctcct-cccacttgcaaactcag--aacatatgaatagataattagatattatattatcctaactaactacaattccaatccc-agCTCTATTGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCTGGCCAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04610.1 (Glycine max), 3'ss of exon 5
gtaagttgctctctgactctttctcat-cttcctaga-gattgattcattat---ccccaaaactagttctacattt---------atttattca---tgtcagcctcattgggattttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
||||||| ||| ||| | | || | | | || || ||| || | | | ||| | | | || |||| | | | || | | | |||| ||||||||| ||||||||||||||| |||| | |||||| | | ||||||||||| || ||||| |||||||| || || | || ||||||| || |||
gtaagttagcttct-actttcccatatacattgtggatgaatgaaacaatccatatcttacaacctctaccaagcttggcaggaaaatttgatgaaattttctgggctaatttctttttgtagGTCTCTTGGGCAGGCATCTCCAAGCTTAACTGCATTCGCTGCAGGACAAGCTGCTGCCTTTAAAATGTTTGAAACGATTAAGAGGCAGCCAGATATTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccaaaactagttctacatttatttattcatgtcagcctcattgggattttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
tttttt CT-rich tract
ttctacatttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgctctctgactctttctcatcttcctagagattgattcattatccccaaaactagttctacatttatttattcatgtcagcctcattgggattttttagGTCTCTAGGGCAGGCATCTCCATGCTTGAGTGCATTTGGCTCTGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATAGAAAGAAAGCCAGAAATAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA