Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttgacatatattctttactccattttcatcttactatttcaataatcattttttgtgttggttgtaaaaatgtacacggtatctctttccaactacagGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC

Basic information

species Vitis vinifera
transcript Vv14s0066g02540.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 11
----------------------------------------------ttttgacatatattctttactccattttcatctt-----------actatttcaataatcattttttgtgttggttgta----aaaatgtacacggtatctc-tttccaactac---agGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC
                                               |    ||    || || ||||   ||  ||||             ||  || |  | || ||||   |  |   | ||     |||| | ||   | |||| ||| | ||| |   |||||||||||||||||||| |||||| || | ||||||||  |||| || || || ||||||||||||||| ||||||||||||||||||| ||||| || 
gtaatattttgtgatttattgttttggcactgttatatggttcaaaatgcatcaatagttattcactctgcttgtatctataattggaaaagcttatttacaactctttttgcataatatctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA

upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 9
ttttgacatatattctt----tactccattttcatcttactatttcaata-atcattttttgtgttggttgtaaaaatgtacacggtatctctttccaactacagGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC
       |||| ||||     || |   ||||   || |  | | | ||| ||  ||       ||  ||||     || | |    ||    || | | |  ||||||||||||||| |||| |||||  || ||||||||||  |||| || || || ||||||||||||||| ||||||| ||||||||||||||||| || 
----actatattttctgcaaatattttcttttatactaataaatactatacattgttcccaacattt-ttgtgctggtgaaaatcacattctgttgctaatgaagGTATTATGATGATTCTGCCTGTGTTCTGCGGAAGATGTTGTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCGCCAACTTTACCTTGGAAAGTA

upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 9
----------------------------------------------ttttgacatatattctttactccattttcatct-tact------atttcaataatcattttttgtgttgg--------ttgtaaaaatgtacacggtatctc-tttccaactac---agGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC
                                               |    ||    || || ||||   ||  |||| || |      || | | | |  | | ||| ||   |        |||   |||| |  |   | |||  ||| | ||| |   ||||||||||||||||| || |||||| || | ||||||||  | || || || || ||||||||||||||| ||||||||||||||||||| ||||| || 
gtaatattttgtgatttattgttttggcattgttgcatggttcaaaatacatcaatagttattcactctgcttgtatctataattggaaaatcttatttacaactctttttgcatgatatctttttggtgaaatttttatcatttcttgtttgctacttctgaagGTATTATGATGATGCCGCCTGTGTGCTGCGCAAGATGTTCTTCGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA

upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 12
ttttgacatatattctt----tactccattttcatcttactatttcaataatcattttttgtgttggttgtaaaaatgtacacggtatctctttccaactacagGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC
       |||| ||||     || |  |||||   || |  | | | |||     ||  |    |  ||||     || | |    ||    || | |||  ||||||||||||||| |||| |||||  || ||||||||||  |||| || || || ||||||||||||||| ||||||| ||||||||||| ||||| || 
----actatattttctgcaaatattttattttatactaataaatactatacgttgttcctcaactttttgtgctggtgaaaatcacattctgttgctactgaagGTATTATGATGATTCTGCCTGTGTTCTGCGGAAGATGTTGTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCGCCAACTTTACCATGGAAAGTA

upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 12
---ttttgacatatattctttac-tccattttcatcttactatttcaataatcattttttgtgttggttgtaaaaatgtacacggtatctctttccaactacagGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC
           | |  || | |  |||| |||       ||   |   || ||||||   || ||  |   | |||||| |||   |||||||||    || |||||||| || ||||||||||||||| |  |||| |||||| | || || ||||| ||||||||||||||||||||||| || | | | || |||||  ||
gataaacactgtgtcatcgtcatatccacttttggaactctcagtttgtattcatttggagttttaatc--agaaatgt-caccagatctctttctctgta-agGTATTACGACGATGCTGCTTGTGTGCTACGGAAAATGTTTTTGGATGCAAAGGCTCCTCATCTTTCTTCAACAATTCCTCCCATTCTGCCATGGAAAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcattttttgtgttggttgtaaaaatgtacacggtatctctttccaactacagGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC
                                    tatctctttcc  CT-rich tract
                  ttgtaaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttgacatatattctttactccattttcatcttactatttcaataatcattttttgtgttggttgtaaaaatgtacacggtatctctttccaactacagGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - actccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaaaa