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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcctccactaaattcttatctctttcatatggatattttctattattcccacatactggtgtcatggcatgctctactttaacactgctcttcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTCCTCCTATGGTCGATCACCTTATTCACGCCGGCTATCTGACTTCTCTACT

Basic information

species Vitis vinifera
transcript Vv08s0007g05060.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G20530.1 (Glycine max), 3'ss of exon 8
gtagcctccactaaattcttatctctttcatatggatattttctattattcccacatactggtgtcatggcatgctctactttaacactgctcttcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTCCTCCTATGGTCGATCACCTTATTCACGCCGGCTATCTGACTTCTCTACT
                     | ||    |||| ||   ||   ||| ||   | |||||  | | ||   ||| | ||   | |    | | ||||| ||||||||||| ||||| ||||| || ||||||||||| ||||||||  |||| || || |||||||||||||| ||  ||||| |  |||||||||||||||| 
--------------------gtttcaccaatattgaacattggcattcttttaa-atactcatat-attatatgttttaagatgaggtcg-tgttcatttgcagGCCTTCAAGTGCCAGAAACTCTGTAAGCTCACCTATAATTGCACGGAATTCTTCTTATGGTCGATCACCGTACCCACGCAGATTATCTGACTTCTCTACA

upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G34080.1 (Glycine max), 3'ss of exon 8
------------------------------------------gtagcctccactaaattcttatctctttcatatggatattt-tctattattc-ccacatactg------gtgtcatggcatgctctactttaacactgc--------tcttcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTCCTCCTATGGTCGATCACCTTATTCACGCCGGCTATCTGACTTCTCTACT
                                          |  |  |  | | ||||   ||   ||    |    ||||  ||| ||   | |   ||| |       | |  ||  |||       | || ||   |        | || || ||||||||||| ||||| ||||| || |||||||||||||||||||| ||||| || || ||||| || ||||| || || ||  |||||||||| |||||||| 
gtagcttccactaatattcgacattggcattctttgaaaaaagctgtttgtagttaatttacattgtttatgaaaatttattcatcttttggccactgaatattccaagctgagatatatcatatatccatatatcatctcacgtgacatttttatttgcagGCCTTCAAGTGCCAGAAACTCCGTAAGCTCACCAATAATTGCTAGGAATTCTTCTTATGGACGGTCACCATACTCGCGTAGGCTATCTGATTTCTCTACA

upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 8
-----------------------------------------gtagcctccactaaattcttatctctttcatatggatatt--ttctattattcccacatactggtgtcatggcatgctctactttaacactgctcttcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTCCTCCTATGGTCGATCACCTTATTCACGCCGGCTATCTGACTTCTCTACT
                                            |  |  | | |||| | ||   |||   | |  ||||  | || |   | |   ||| |     | ||  |||   |    | ||| |    ||||| |||||||| || ||||| ||||| || |||||||||||||||||||| ||||| || || ||||| || ||||| || || ||  ||||||| || |||||||| 
gtagctttcactaatatttaacattggcattctttgaaaaaactgtttgaagttaattttcattgttttttaaagtttattaatcctttggctactgaatattccaagc-tgatatgtcatctcatgacatt----ttcatttgcagGCCGTCGAGTGCCAGAAACTCTGTAAGCTCACCAATAATTGCTAGGAATTCTTCTTATGGACGGTCACCATACTCGCGTAGGCTATCCGATTTCTCTACA

upper sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G06220.1 (Glycine max), 3'ss of exon 9
gtagcctccactaaattcttatctctttcatatggatattttctattattcccacatactggtgtcatggcatgctctactttaacactgctcttcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTCCTCCTATGGTCGATCACCTTATTCACGCCGGCTATCTGACTTCTCTACT
||||| | ||| ||         | ||  | || |  ||| | |   || | || ||| |           ||| | ||   | |   || | ||||| | ||||||||| ||||| ||||| || ||||||||||| |||||| |  |||| || || ||||| |||||||| || ||  |  | ||||||||||||||||| 
gtagctttcaccaa---------tattgaacattggcattcttttaaatactcatatatta---------tatgttttaagatgaggatg-tgttcatttacagGCCTTCAAGTGCCAGAAACTCTGTAAGCTCACCCATAATTACACGGAATTCTTCTTATGGCCGATCACCGTACTCGAGGAGACTATCTGACTTCTCTACA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110699988|gb|EE077512.1|EE077512
EST:     GAGACAGCGCATGAAACCGCTCTGAGTAACGCCAGAAAGAGTAGTGCAAG                         GCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTC
genomic: GAGACAGCGCATGAAACCGCTCTGAGTAACGCCAGAAAGAGTAGTGCAAGgtagcctcca ... tcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTC
EST: gi|30253246|gb|CB970797.1|CB970797
EST:     GAGACAGCGCATGAAACCGCTCTGAGTAACGCCAGAAAGAGTAGTGCAAG                         GCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTC
genomic: GAGACAGCGCATGAAACCGCTCTGAGTAACGCCAGAAAGAGTAGTGCAAGgtagcctcca ... tcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTC
EST: gi|161708259|gb|FC055259.1|FC055259
EST:     GAGACAGCGCATGAAACCGCTCTGAGTAACGCCAGAAAGAGTAGTGCAAG                         GCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTC
genomic: GAGACAGCGCATGAAACCGCTCTGAGTAACGCCAGAAAGAGTAGTGCAAGgtagcctcca ... tcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccacatactggtgtcatggcatgctctactttaacactgctcttcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTCCTCCTATGGTCGATCACCTTATTCACGCCGGCTATCTGACTTCTCTACT
                              ctttaac  putative branch site (score: 3)
                                         ctcttcatct  putative PPT
                            tactttaa  TA-rich tract