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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcaagcaatattatcttgcctttttgttcattttctgcttaccctttgaatgttatgtctatggtcattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGCTCTGATGTCTCACGAACAGAAAATGGTGTTGCTGGAA

Basic information

species Vitis vinifera
transcript Vv19s0014g05070.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g05070.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os04g53760.1 (Oryza sativa), 3'ss of exon 11
gtgagcaagcaatattatcttgcctttttgttcattttctgcttaccctttgaatgtt-atgtctatggtcattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGCT-CTGATGTCTCACGAACAGAAAATGGTGTTGCTGGAA
                             |||  | | |    | |  |    ||  | | || ||   ||  |||       |  || |   |      ||| || |||  ||||||||||||||||| ||||| |||||||||||||||||| || |   ||| ||      ||    |||  | | ||| |||   |    |   ||
-----------------------------gttagtatccatagtgcaatgcagattctgaagtgtacattctatgtag---tgttgctgagagtttttcctatgtgcagGCATCAATGTTGGAAATATACAATGAGACAATTCGTGATTTGTTAGCACCTGGTCGGTCTAATAACTTTGATCTGTCTACCAGTAAACAATAC-ACCATAA

upper sequence: Vv19s0014g05070.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G114861_T01 (Zea mays), 3'ss of exon 11
gtgagcaagcaatattatcttgcctttttgttcattttctgcttaccctttgaatgttatgtctatggtcattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGC--TCTGATGTCTCACGAACAGAAAATGGTGTTGCTGGAA
          | |||      ||  ||| | |  ||  ||| |      ||  |||||||  |||      | || || |||| | |  |||   |       || |||  ||||||||||||||||| ||||| || ||||||||||||||| || |   ||| ||   |  | |   ||||    ||||    |   |   ||  |  
-------gttagtatctcaaagctatttagcttcttaactgttgttttattttatgttattgctaa---tttggtaaagacatatttggttcgttg-------tgcagGCATCAATGTTGGAAATATACAATGAGACCATTCGTGATTTGTTAGCACCTGGTCGGTCTAACAGTTTTGAGTCTAGTAAACAATGCACTATAAAGCATG--

upper sequence: Vv19s0014g05070.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA12G34330.1 (Glycine max), 3'ss of exon 11
gtgagcaagcaatattatcttgcctttttgttcattttctgcttaccctttgaatgttatgtctatggtcattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGCTCTGATGTCTCACGAACAGAAAATGGTGTTGCTGGAA
            |  |||   || |||   |   ||||   |  |     ||| ||  |||| |||    ||| | |  |    || | |  ||| || ||     |||| ||||||||||||||||| |||||||| ||||||||| ||||||| ||||||   || |  || || |   ||| ||||  |   |    || |    
-----------gtgatatagagcatttccttctttttttcacaca-----tgattgcaatgtttataa--attttaaggatgattcgt-tcataaaattta---acagGTGTCAATGTTGGAAATATACAATGAAACCATTCGTGATCTGTTATCTACAAATAAGTCATCATCAGAAGGAACACCAACACGAGTGGAAAATGGTACTC

upper sequence: Vv19s0014g05070.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G36230.2 (Glycine max), 3'ss of exon 12
gtgagcaagcaatattatcttgcctttttgttcattttctgcttaccctttgaatgttatgtctatggtcattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGCTCTGATGTCTCACGAACA------GAAAATGGTGTTGCTGGAA
        |  | | ||   |   || ||  | |||  | | | |     | ||| ||     |  ||||  |  ||| |  |  ||| ||| ||     |||   |||| || |||||||||||||| |||||||| ||||||||| ||||| | ||||||   || |   | ||||   ||| ||||      |||||||||  |       
--------gtga-agtagagtatattcttcgttattcacagatca-----taaattttgatgttgaggtc--taagaaaattttccttcttcaaa-----attaacagGTGTCTATGTTGGAAATATACAATGAAACCATTCGTGATCTGTTAGCTACAAATAAGTCATCAGCAGATGGAACACCAACACGTGTGGAAAATGGTACTC------

upper sequence: Vv19s0014g05070.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA12G16580.1 (Glycine max), 3'ss of exon 12
gtgagcaa-gcaatattatcttgcctttttgttcattttctgcttaccctttgaatgttatgtctatggt--cattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGCTCTGATGTCTCACGAACAGAAAATGGTGT-TGCTGGAA-
    | ||   | |||| |  | | |  || | ||   |     | |   |  ||| |||  | |        ||||  || |    | |  ||  || ||    ||  |||| ||||||||||||||||| |||||||| || |||||| || |||| ||||  | |  |   |   |  |   ||     |||||   | |    |  || 
----gtaacagagtatttttcttcttaattttacaccattgcaatgcgtataaaattttaaatatgacacagaattgctaataaggttttccttgcaaaat----ttacagGTGTCAATGTTGGAAATATACAATGAAACGATCCGTGATCTGATATCTACAA--CAACACGCATGGAAAATGGTACTCCTGGAAAACAATATACAATCAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttatgtctatggtcattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGCTCTGATGTCTCACGAACAGAAAATGGTGTTGCTGGAA
                                 ttattctaagatatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcaagcaatattatcttgcctttttgttcattttctgcttaccctttgaatgttatgtctatggtcattgtgaacacatgtcttattctaagatatatttgtagGTTTCAATGTTGGAAATATATAATGAAACAATTCGTGATTTGTTATCAACAAATCGATCCTGCTCTGATGTCTCACGAACAGAAAATGGTGTTGCTGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA