Sequence
atgc intronic sequence ATGC exonic sequencegtaagctgcacaacccttattttccaatcctccaacagcatcagctcaatttgatgccttggaatactaggatttttggatgtaatttggataattttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G17930.1 (Glycine max), 3'ss of exon 5
-----------------------------gtaagctgcacaacccttattttccaatcctccaacagcatcagctcaatttgatgccttgga-atacta--ggatttttggatgtaat------ttggataatt----------ttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
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gtgagttgtgtttctttttctttcttaaaatgaacc-tacaatttctaaacttgactgagttgactccctcctcccatttgaaaactcagaagatatgaatagataattagatattatattatactaactaactatgattccaatcccagGTCTCTAGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCAGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G17910.1 (Glycine max), 3'ss of exon 5
-------------------------------------------gtaagctgcacaacccttattttccaatcctccaacagcatcagctcaatttgatgccttggaatactaggatttttggatgtaatttggataattttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
||| | | || | ||| || || | | |||| || |||| | ||| || | | | || || || |||||||||| |||||| |||||||| || | | || ||||| ||||||||||||||||| |||||||||||||| ||||| || ||||||||||| || |||
gtaagttgtgtatgtgttgctctttcttaatatgagactataaataatatctaaaattgattccctcccgctgtctaaaatc-tcagaa-gatatgattagatattatattatcctacctaactatatttccaat-----cccagGTCTCTTGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCAGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04600.1 (Glycine max), 3'ss of exon 9
-----------------------------gtaagctgcacaacccttattttccaatcctccaacagcatcagctcaatttgatgccttggaatactaggatttttggatgtaatttggataattttc-cagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
|| ||| | || ||| | ||||| | | ||| | | | || | || || || || | | ||| | | | || ||||||||| |||||| |||||||| || | | || ||||| || |||||||||||||| |||||||||||||| ||||| || |||||||||||||| |||
gtaagttgtgtgtgttcctctttcttagtgtgagcc-tataatttttaaaattgaatccctccccc-tatctgaaaactgagaagatatgaaagg--agtatcatcctacctaactagatttccaatctcagGTCTCTTGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCTGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAGATTGAT
upper sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G17920.1 (Glycine max), 3'ss of exon 5
-----------------------------gtaagctgcacaacccttattttccaatcctccaacagcatcagctcaatttgatgccttggaatactaggattt--ttggatgtaatttggata-attttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
|| ||| |||| || | | ||| | || ||| | | | || | || || || | | | ||| | | | | |||||||||| |||||| |||| ||| || | | || ||||| ||||||||||||||||| |||||||||||||| ||||| || ||||||||||| || |||
gtaagttgtgtgcgttcctctttcttaatgtgagcc-tacaatttctaaaatggactccctccacc-tatctgaaaactcagaagatatgaaaagaggctatgtcatcctacctaactagattttgaatcccagGTCTCTTGGGCAGGCATCACCAAGCTTGAGTGCTTTTGCTGCAGGACAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04590.1 (Glycine max), 3'ss of exon 5
----------------------------------------------gtaagctgcacaacccttattttccaatcct-ccaacagcatcagctcaatttgatgcct--tggaatactaggatttttggatgtaatttggataattttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
||| || || || | | | ||| | || |||| || | || | | ||| || | | | | | | | |||| ||| | |||||| |||||||| || | | || ||||| || || ||||||||||| |||||||||||||| ||||| || ||||||||||| || |||
gtaagttgtttgtttctttttctttcttaaaatcaacctacattttctaaacttgacttagctaactccctcctcccacttgcaaactcagaacatatgaatagataattagatattatattatcctaactaactacaattccaatcccagCTCTATTGGGCAGGCATCTCCAAGCTTGAGTGCTTTTGCTGCTGGCCAAGCTGCAGCCTTTAAGATGTTTGAAACAATTAAAAGGAAGCCAGAAATTGAT
upper sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04610.1 (Glycine max), 3'ss of exon 5
--------------------------gtaagctgcacaacccttattttccaatcctccaacagcatcagctcaatttgatgccttggaatactaggatttttggatgtaatttggataattttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
| || | | | |||| || ||| | || | | ||| | | ||||| | |||||| |||| |||||||| |||||| |||||||| || | | ||||| || |||||||||||||| || ||||| |||||||| || || || ||| ||||||| || |||
gtaagttagcttctactttcccatatacattgtggatgaatgaaacaatccatatctt--acaacctctaccaagcttggcaggaaaatttgatgaaattttctgggctaatttct----ttttgtagGTCTCTTGGGCAGGCATCTCCAAGCTTAACTGCATTCGCTGCAGGACAAGCTGCTGCCTTTAAAATGTTTGAAACGATTAAGAGGCAGCCAGATATTGAT
upper sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04620.1 (Glycine max), 3'ss of exon 6
----gtaagctgca----caacccttattttcca-atcctccaacagcatcagctcaatttgatgccttggaatactaggatttttggatgta-------atttggat--aattttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
|| || | | ||| |||||| || | ||| ||| ||| | || | | |||| || || |||| || ||||||||||||| | |||||| ||| || | | ||||||||| |||||||||||||| || ||||| || ||||| ||||| |||||| | ||||| || |||
gtaagttagtttctgctttaacaactatttttgggattcatcaatcatatct-tacaacctttctcccaagcttggcaggaaaatttgacacgcatttccattttaattttattttccagGTCTTTGGGGCAGGTTTCTACAAATTTAACAGCATTTGCTGCAGGACAAGCTGCCGCCTTTAAAATATTTGAAACAATAAATAGGCATCCAGATATTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttgatgccttggaatactaggatttttggatgtaatttggataattttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
atttgat putative branch site (score: 5)
ttttcc putative PPT
taatttggataatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctgcacaacccttattttccaatcctccaacagcatcagctcaatttgatgccttggaatactaggatttttggatgtaatttggataattttccagGTCTCTAGGGCAGACATCTCCATGCATTAAAGCATTTGCAGCAGGACAAGCTGCAGCATTTAAGATGTTTGAGACAATCAATAGGAAGCCAGAGATAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG