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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taccatataaaatggtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA

Basic information

species Vitis vinifera
transcript Vv07s0031g02090.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os03g15900.2 (Oryza sativa), 3'ss of exon 12
taccatataaaatggtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgtt--ggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA
     |  | |    || | |||     ||  | | |  |||  | |   |  | | || |||  ||  || ||||  | ||   |||||    | |  ||||||||||| |||||||| |||||||| ||||| ||||| |||||||||||||| ||||||||||| ||||| |||||||||||| ||||||| || ||||
--ttgtgcatacattttgtagctattaatttgattattaataatcttttatcatttgctaaatacatggttgatttattattcgtttgttcttacatgatagGCAACTCCTGATATGGCCGTGACTCTGCTTGAGATTGCTAGAATTTTTGCTACCAAAGTTCCTGGCAAGATCGATGCTGATGTACTACAACTCCTGTGGA

upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 13
-taccatataaaatg-gtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA
 |   ||     |||   || | ||||   || |  |  | || |  |   ||     | || || | |   ||||| |  | ||  |  |   | |  |||||||| || ||||||||||||||||| ||||| ||||||||||||||||| |||||||||||||| |||||||||||||||||  ||||  |  ||||||
tttttatggttcatgcacttatccttctgatttttattagcatgtgtccctttatctgatttcatgattgacttattattctgtttgtctt--acatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA

upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 14
taccatataaaatggtttttgcttccttt---tgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA
     ||||   ||||   |||      |   ||| || | | ||| | ||  |  || |     | | | |  |   |  || || |   || ||||   ||||  |||||||||||||||| ||||| ||||||||||||||||| |||||||| |||||||| || ||| ||||||||||||| |||||||| || ||||
--ttgtatatcttggtgcatgcaatgggtaaatgtgcttt-tgtattcatgcataatggaaaacctgagtttgcttaatagttatttcaattttgctttgaagGCTTCTCCAGATATGGCTGTTACTCTTCTTGAAATTGCAAGAATATTTGCTACCAAAGTTCCAGGAAAGGTTGATGCTGATGTGTTACAACTGCTCTGGA

upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 14
taccatataaaatggtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttatt--ttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA
     ||||   | ||   |||      |     ||  | | ||           ||   || | |  |||  ||  |  || || |   || ||||   ||||  |||||||||||||||| ||||| ||| ||||||||||||| |||||||| |||||||| || ||| ||||||||||||| || ||||| || ||||
--ttgtatatcttagtgcatgcaatgggtaaatgtgcttttgtattcatgcataatagaaaacctaagtttgcttaatagttatttcaattttgctttgaagGCTTCTCCAGATATGGCTGTTACTCTTCTTCAAATTGCAAGAATATTTGCTACCAAAGTTCCCGGAAAGGTTGATGCTGATGTGTTGCAACTGCTCTGGA

upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 15
----taccatataaaatggtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA
    | |  |          |   |      ||  || || | |   |  |    ||| | |||  | | || || | | | |||    ||  |   ||   |||||||||||||||||||||| | ||| || |||||||| ||||| ||||| || |||||||| ||||| ||||| |||||||| ||||| || |||||||
cttatccattgcgttgaaactgaagaaaaacttgttattgaggagtaatgttaactgttttcttc-tgactagttaactctttttaatttttct---ttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA
           acttaat  putative branch site (score: 4)
                       ttttattttctttttc  putative PPT
        tgtacttaatcaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taccatataaaatggtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - ataaaat
- - - - - - - - - -tgcttcc
- - - - - - - - - - - - - - - - - - - - - tacctgg