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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagacttacacttggtgtgttgcattttaagatgtactttgatctgagaatttttccctaaatttaatctgcaatgccttcttttttcctctggtttgtagGTTGTTTCAAGTGCAATAATTGATAAATACATTGGGGAAAGTGCAAGGTTAATACGAGAAATGTTTGGATATGCACGTGATCACCAA

Basic information

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

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G07750.1 (Glycine max), 3'ss of exon 5
gtcagacttacacttggtgtgttgcattt-taagatgtactttgatctgagaatttttccctaaatttaatctgcaatgccttcttttttcctctggtttgtagGTTGTTTCAAGTGCAATAATTGATAAATACATTGGGGAAAGTGCAAGGTTAATACGAGAAATGTTTGGATATGCACGTGATCACCAA
               |   |||| ||||| | |  |  | | || | | ||  ||| |     ||| | |  || ||||     | |  | |       |||||||||||||||||||||||||||||||||||||||| |||||||| |||||||| |||||||||||||| ||||||||||||||||| 
-----------gtcagaattgtttcatttctgaattccattgtgttttaaggttttgttt---aatctcaaatgtaatgttccttatcctacatgttggtgtagGTTGTTTCAAGTGCAATAATTGATAAATACATTGGAGAAAGTGCCAGGTTAATTCGAGAAATGTTTGGCTATGCACGTGATCACCAG

upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G37220.1 (Glycine max), 3'ss of exon 5
gtcagacttacacttggtgtgttgcattt-taagatgtactttgatctgagaatttttccctaaatttaatctgcaatgccttcttttttcctctggtttgtagGTTGTTTCAAGTGCAATAATTGATAAATACATTGGGGAAAGTGCAAGGTTAATACGAGAAATGTTTGGATATGCACGTGATCACCAA
               |   |||| ||||| | |  |  | | || | ||||| ||||     |  |  ||| |    | ||||    ||     ||||  ||||||||||||||||||||||||||||||||||||||| |||||||| |||||||| |||||||||||||| ||||||||||||||||| 
----------ggtcagaattgtttcatttctgaattccattgtgttttgaga-ttttggttaatctcaaatgtattgtaccttacccttcatgttggt--gtaGGTTGTTTCAAGTGCAATAATTGATAAATACATTGGAGAAAGTGCCAGGTTAATTCGAGAAATGTTTGGCTATGCACGTGATCACCA-

upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G03180.1 (Glycine max), 3'ss of exon 5
gtcagacttacacttggtgtgttgcattttaagatgtactttgatctgagaatttttccctaaatttaatctgcaatgccttcttttttcctctggtttgtagGTTGTTTCAAGTGCAATAATTGATAAATACATTGGGGAAAGTGCAAGGTTAATACGAGAAATGTTTGGATATGCACGTGATCACCAA
|||||| |||   ||  | | |   ||| |    ||| ||||||      | | ||   |    |  ||| |    | |||||  ||    |||| |  |||||||||||||||||| ||||||||||| |||||||| |||||||| ||||||||  |||| |||||||| ||||||||||||||||| 
gtcaga-ttatgtttcttttataa-attctg---tgtgctttga------agtcttcttcattgtaaaatttattttaccttcccttcat-tctgat--gtagGTTGTTTCAAGTGCCATAATTGATAAGTACATTGGAGAAAGTGCCAGGTTAATCAGAGAGATGTTTGGTTATGCACGTGATCACCAG

upper sequence: Vv18s0001g13090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G03230.1 (Glycine max), 3'ss of exon 5
gtcagacttacacttggtgtgttgcattttaagatgtactttgatctgagaatttttccctaaatttaatctgcaatgccttcttttttcctctggtttgtagGTTGTTTCAAGTGCAATAATTGATAAATACATTGGGGAAAGTGCAAGGTTAATACGAGAAATGTTTGGATATGCACGTGATCACCAA
|||||| |||   ||  | | |   ||| |    ||| ||||||      | | ||   |    |  ||  |    || ||||  |||   |||| |  |||||||||||| ||||| |||||||| || |||||||| |||||||| ||||||||  |||| |||||||| ||||||||||||||||| 
gtcaga-ttatgtttcttttataa-attctg---tgtgctttga------agtcttcttcattgtaaaaattattttgtcttccctttat-tctgat--gtagGTTGTTTCCAGTGCCATAATTGACAAGTACATTGGAGAAAGTGCCAGGTTAATCAGAGAGATGTTTGGTTATGCACGTGATCACCAG

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:     CATTATTAGCTAGAGCAATTGCCAGTAATATAGATGCCAACTTCTTGAAG                         GTTGTTTCAAGTGCAATAATTGATAAATACAT
genomic: CATTATTAGCTAGAGCAATTGCCAGTAATATAGATGCCAACTTCTTGAAGgtcagactta ... tggtttgtagGTTGTTTCAAGTGCAATAATTGATAAATACAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaatttttccctaaatttaatctgcaatgccttcttttttcctctggtttgtagGTTGTTTCAAGTGCAATAATTGATAAATACATTGGGGAAAGTGCAAGGTTAATACGAGAAATGTTTGGATATGCACGTGATCACCAA
                            tgccttcttttttcct  CT-rich tract
            taaatttaatct  TA-rich tract