Sequence
atgc intronic sequence ATGC exonic sequence...actttagaatttactgcttttcccaatatttgtttgagaggatattggaaggctttgtttaaatgtctattgacttgttctgacatattgttgttggtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G38670.1 (Glycine max), 3'ss of exon 12
actttagaatttactgcttttcccaatatttgtttgagaggatattggaaggctttgtttaaatgtctattgacttgttctgacatattgttgttg-----gtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
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----cataaacttttgtgactagcaactatactacattctgatttttacatcctaagtgtatgt-tatgttggcttcctcttacaatttgttgttgttgttgtagCTGCTCACCAAATCTTGTCAATCACCAAGTTCTTGTAGAGAGCATGGATTGTGAACGTGCACATATTGGTTTTTATGCAAGTCGAGAT
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G06620.1 (Glycine max), 3'ss of exon 10
actttagaatttactgcttttcccaatatttgtttgagaggatattggaaggctttgtttaaatgtctattgacttgttctgacatattgttgttg--gtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
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-atgcataaacttttgtgactagcaactattctacattctgatttttacatcctaaatgtatgt-tatgatggtttcctctaacaatttattgttgttgtagCTGCTCACCAAATCTTGTCAATCACCAAGTTATTGTAGAGAGCATGGATTGTGAACGTGCACATATTGGTTTTTATGCAAGTCGAGAT
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G06760.1 (Glycine max), 3'ss of exon 11
-actttagaatttactgcttttcccaatatttgtttgagaggatattggaaggctttgtttaaatgtctattgacttgttctgacatattgttgttg--gtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
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ttttattgaagcataagattttatcactagcaactttttaattcattgttttacttcct---aacgcctgttggtttcctcttgcaatttggggttattgcagCTGCTCGCCCAATCTTGTGAGTTACCAAGTTCTTGTAGAGAGCATGGATTGTGAGCGTGCACATATTGGTCTTTACGCAAATCGAGAT
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G25800.1 (Glycine max), 3'ss of exon 12
actttagaatttactgcttttcccaatatttgtttgagaggatattggaaggctttgttta-aatgtctattgacttgttctgacatattgttgttg--gtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
| | | || | |||| || || || | |||| | || || |||| || ||| || ||| || |||||||| | |||||||| || || || | | | ||||||||||||| || |||||||||||| ||| ||||||||||||||| | ||||||||||||
--tatgaagcataa-gattttatcactagcaactttttatttcattgtgatatttacttcctaatgcctgttggttttctcttgcaatttgttgttattgcagCTGCTCGCCCAATCTTGTGAGTTACCAAGTTCTTGTAGAGAGCATGGATTGTGAGCGTGCACATATTGGTCTTTACGCAAATCGAGAT
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G23740.1 (Arabidopsis thaliana), 3'ss of exon 10
actttagaatttactgcttttcccaatatttgtttgagaggatattggaaggctttgtttaaatgtctattgacttgttctgacatattgttgttggtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
|| ||| |||| | | | | || | || | ||| || ||| || | | || | | ||||||||||||||| ||| |||||||||||||| |||||||||||||||| | | ||| || ||||| ||||| | || | | |||
-------------gtgagtttat-aatacaaatgtaccaaaacctttacaa---ttactacaata-ctgatgattt----caatcttttttaatctctagCTGCTCACCAAATCTCGTTAATCACCAAGTTATTGTGGAAAGCATGGAGTCCCCGCTCGCTCATATCGGTCTATACGCCAGTATGGAT
upper sequence: Vv04s0023g00980.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S325_74V6.1 (Physcomitrella patens), 3'ss of exon 13
---------------------------------------------------------actttagaatttactgcttttcccaatatttgtttgagaggatattggaagg--ctttgtttaaatgtct--attg-----acttgttctgacatattgttgttggt----agCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
||||||| | || | || | | ||||| | | |||| | | ||| || | | ||| || | | | |||||| | || | ||||| | || || || || ||| | | || || |||||||||||||| |||||||| || || || ||| ||||||| |||||||||
gttgttcatgctggctcattgatttgatcattcttgtccattctgatctacagcgatgttttagaaac-attgttcatcttgaaacttgttgaaaacaatatgaaatgattcttcattggactatctcagctggagacattatgtttgacatctgtaccctgatgtacagCTGTGCTCCTAATCTGATCAATTATGAGGTGCTGGTGGAAAGCATGGACTGTCAGCTGGCCCACATCGGTTTCTTTGCCAATCGAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggaaggctttgtttaaatgtctattgacttgttctgacatattgttgttggtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
ttctgac putative branch site (score: 2)
tttaaatgtctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actttagaatttactgcttttcccaatatttgtttgagaggatattggaaggctttgtttaaatgtctattgacttgttctgacatattgttgttggtagCTGCTCACCAAACCTCATTAATCACCAAGTTCTTGTGGAAAGCATGGATTGTCAGCTTGCACATATTGGTCTCTTTGCAAATCGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - -tactgct
- - - - - - - - - -ttcccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacat