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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTGTCGCAGTAAAGTGGATAAGGAAAAACTGACTTCTGGAACAAGAGTGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttaccatggttctctatgtggactttgctgtgtaataccaactggataacttagtggcattagaattgatgattactccatttggtcatgattattttcaacattttagttagtgacaatcataaaagaaaaaagagagtttgtgtggttctcctgatagactgtgctatgatgatgtttaatag

Basic information

species Vitis vinifera
transcript Vv18s0001g13090.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA04G03180.1 (Glycine max), 5'ss of exon 3
TGGCTGTCGCAGTAAAGTGGATAAGGAAAAACTGACTTCTGGAACAAGAGTGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttaccatggttctctatgtggactttgctgtgtaat-accaactggataacttagtggcattagaattgatg-att--actccatttggtcatgattattttcaacattttagttagtgacaatcataaaagaaaaaagagagtttgtgtggttctcctgatagactgtgctatgatgatgtttaatag
||| || |||||||||||||||||||||||| ||||||| || ||||| |||||||||||||||||||||||||| || |||||||||||||| || |||||||||   | | |||   ||| |  |  ||    | | || | ||  |   |  | |  ||   | |||  ||||  |||  |  ||   ||||||  ||| | |  ||   |||   | ||   | |    |                                                            
TGGTTGCCGCAGTAAAGTGGATAAGGAAAAATTGACTTCAGGGACAAGGGTGGTTCTTGATATGACAACACTCACCATAATGCGAGCTCTTCCTCGAGAAgtaagt---cgtagtttattattttaatattttcattttatgaacatgttcttttcctgttgtgctaagatctgatttattggatccctggtggtcactattgtctctaattctttg--tcgttggagttgccag-----------------------------------------------------------

upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA14G07750.1 (Glycine max), 5'ss of exon 3
TGGCTGTCGCAGTAAAGTGGATAAGGAAAAACTGACTTCTGGAACAAGAGTGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttaccatggttctctatgtggactttgctgtgtaataccaactggataacttagtggcattagaattgatgattactccatttggtcatgattattttcaacattttagttagtgacaatcataaaagaaaaaagagagtttgtgtggttctcctgatagactgtgctatgatgatgtttaatag
|||||| ||||||||||| |||||||||||||||||  |||| ||||||||||||||||||||||| || || || || ||||||||||||||||||||||||||||        | ||| | |    ||||||     |||   | |  ||    |  |    || |  |   |||||       ||  | |  || || | | |  |||| ||   |||   |||  |      |  |   |||                                            
TGGCTGCCGCAGTAAAGTAGATAAGGAAAAACTGACCGCTGGTACAAGAGTGGTTCTTGATATGACCACGCTAACCATAATGCGAGCTCTTCCACGTGAAgtaagtt--------tttctgttta---tttgcttca-gatatttatttaatttggtgttcttgttgggctatctgatttggtttctttctgaaaatcatgtcctagtttttcgtgtctgatggtcaatatgatctatcgcatgttgacag---------------------------------------

upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA17G37220.1 (Glycine max), 5'ss of exon 3
-TGGCTGTCGCAGTAAAGTGGATAAGGAAAAACTGACTTCTGGAACAAGAGTGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttaccatggttctctatgtggactttgctgtgtaataccaactggataacttagtggcattagaattgatgattactccatttggtcatgattattttcaacattttagttagtgacaatcataaaagaaaaaagagagtttgtgtggttctcctgatagactgtgctatgatgatgtttaatag
 |||||| ||||||||||| |||||||||||||||||| |||| || ||||| |||||||||||||| || ||||| || ||||| ||||||||||||||||||||||       ||  || | |     || || |   ||| | | | |||   || |||         ||  || |   ||      ||||||     |   |   |||| ||   |||   |||  |    | |  | | |||                                            
TTGGCTGCCGCAGTAAAGTAGATAAGGAAAAACTGACTGCTGGTACGAGAGTCGTTCTTGATATGACGACGCTCACCATAATGCGGGCTCTTCCACGTGAagtaagtt-------tttgctgttta----ttccttttagatatctatttgat---ttggtgcatgcgatgtttgtgttctttctgaa-agtcatg-----tcctagtttttttgtgtctgatggtcaatatgatatatcgtgtgttgaca----------------------------------------

upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G03230.1 (Glycine max), 5'ss of exon 3
TGGCTGTCGCAGTAAAGTGGATAAGGAAAAACTGACTTCTGGAACAAGAGTGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttaccatggttctctatgtggac-tttgctgtgtaataccaactggataacttagtggcattagaattgatga---ttactccatttggtcatgattattttcaacattttagttagtgacaatcataaaagaaaaaagagagtttgtgtggttctcctgatagactgtgctatgatgatgtttaatag
||| || |||||||||||||||||||||||| ||||||| || ||||| |||||||| ||||||||||||||||| || |||||||||||||| || ||||||| |   ||| |||   ||| |  |  ||| || | ||  | ||  |   |  |||  ||   | | |  ||||     |||  ||   || |||   || | |  ||   |||   | ||   | |    |                                                            
TGGTTGCCGCAGTAAAGTGGATAAGGAAAAATTGACTTCCGGGACAAGGGTGGTTCTCGATATGACAACACTCACCATAATGCGAGCTCTTCCTCGAGAAgtaatt---catagtttattattttaatattttctttttatgaacatgttcttgtcttgttgtgctaacatctgatttattttatccctggtgatcactgttgtctctaattctttg--tcgttggagttgccag-----------------------------------------------------------

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|30128746|gb|CB914085.1|CB914085
EST:     TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAA                         GTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC
genomic: TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttacc ... tgtttaatagGTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC
EST: gi|30136830|gb|CB922168.1|CB922168
EST:     TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAA                         GTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC
genomic: TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttacc ... tgtttaatagGTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC
EST: gi|294966241|gb|GW839464.1|GW839464
EST:     TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAA                         GTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC
genomic: TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttacc ... tgtttaatagGTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC
EST: gi|71859476|gb|DT008531.1|DT008531
EST:     TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAA                         GTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC
genomic: TGGTTCTTGATATGACAACACTCACAATCATGCGAGCTCTTCCACGTGAAgtaagttacc ... tgtttaatagGTTGATCCAGTTGTTTATAACATGTTGCACGAAGATCCTGGTAATGTCAGC