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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagtgttaaatctttgtgtcaacttcactggacatgagttctgggttcttttctgttgtctatgtcttttctgctttgttgctgtcaggaaaataacaagttcctcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGTGGGCCCCCCCCATAAAACACAGTTTAGAAGGGATGAAAACTATG

Basic information

species Vitis vinifera
transcript Vv06s0004g02820.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA12G29450.3 (Glycine max), 3'ss of exon 11
gtaaaagtgttaaatctttgtgtcaacttcactggacatgagttctgggttcttttctgttgtctatgtctt-ttctgctttgttgctgtcaggaaaataacaagt-tcctcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGTGGGCCCCCCCCATAAAACACAGTTTAGAAGGGATGAAAACTATG
                                             | |     || |||| |  | | | |  | |   ||||||  |||||| || |||||  |  |||  | ||||||| ||||||||||||||||||| |||| ||| ||||||||||||| |||| | || || |   | ||||| ||||||||||||||||||||||| |
--------------------------------------------gtagcgatgttgctgtagcttttttttaatgcatttttgttattgtcagcaatataacctgcctccgttgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCAC---ACAAAACTCAGTTTAGAAGGGATGAAAACTACG

upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA12G29450.1 (Glycine max), 3'ss of exon 11
gtaaaagtgttaaatctttgtgtcaacttcactggacatgagttctgggttcttttctgttgtctatgtcttttctgcttt-gttgctgtcaggaaaataacaagt-tcctcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGTGGGCCCCCCCCATAAAACACAGTTTAGAAGGGATGAAAACTATG--------
                                             | |     || |||| |  | | | |  |    ||| |||  |||||| || |||||  |  |||  | ||||||| ||||||||||||||||||| |||| ||| ||||||||||||| |||| | || || |   | ||||| ||||||||||||||||||||||| |        
--------------------------------------------gtagcgatgttgctgtagcttttttttaatgcatttttgttattgtcagcaatataacctgcctccgttgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCAC---ACAAAACTCAGTTTAGAAGGGATGAAAACTACGGTAACAAA

upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G40080.1 (Glycine max), 3'ss of exon 12
gtaaaagtgttaaatctttgtgtcaacttcactggacatgagttc-tgggttcttttctgttgtctatgtcttttctgctttgttgctgtcaggaaaataacaagt-tcctcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGTGGGCCCCCCCCATAAAACACAGTTTAGAAGGGATGAAAACTATG
                                  |    || ||  ||| || | ||    |  || | | | | |   ||||||  |||||| || |||||  || |||  | || |||| | ||||||||||||||||| |||| ||| ||||||||||||| |||| | || || |   | ||||| ||||||||||||||||||||||| |
----------------------------------gtagcgattttgtggattatgttgctgtaactttttttatgcatttttgttattgtcagcaatataacctgtctccgttgttacagACTGTATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCAC---ACAAAACCCAGTTTAGAAGGGATGAAAACTACG

upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G40080.2 (Glycine max), 3'ss of exon 12
gtaaaagtgttaaatctttgtgtcaacttcactggacatgagttc-tgggttcttttctgttgtctatgtcttttctgctttgttgctgtcaggaaaataacaagt-tcctcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGTGGGCCCCCCCCATAAAACACAGTTTAGAAGGGATGAAAACTATG--------
                                  |    || ||  ||| || | ||    |  || | | | | |   ||||||  |||||| || |||||  || |||  | || |||| | ||||||||||||||||| |||| ||| ||||||||||||| |||| | || || |   | ||||| ||||||||||||||||||||||| |        
----------------------------------gtagcgattttgtggattatgttgctgtaactttttttatgcatttttgttattgtcagcaatataacctgtctccgttgttacagACTGTATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCAC---ACAAAACCCAGTTTAGAAGGGATGAAAACTACGGTAACAAA

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|22014769|gb|BQ799803.1|BQ799803
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
EST: gi|22014874|gb|BQ799908.1|BQ799908
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
EST: gi|110360647|gb|EC923921.1|EC923921
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
EST: gi|22014663|gb|BQ799697.1|BQ799697
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
EST: gi|33403777|gb|CF209404.1|CF209404
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
EST: gi|22014543|gb|BQ799577.1|BQ799577
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
EST: gi|110412539|gb|EC978290.1|EC978290
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
EST: gi|110375913|gb|EC940942.1|EC940942
EST:     GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAG                         ATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT
genomic: GTATCTTCGGAGTTCTCACCACCAATTAACAGTTCCAGACAGCAGAAAAGgtaaaagtgt ... tcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgtcttttctgctttgttgctgtcaggaaaataacaagttcctcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGTGGGCCCCCCCCATAAAACACAGTTTAGAAGGGATGAAAACTATG
                               aaataac  putative branch site (score: 2)
                                         ttcctcttttgc  putative PPT
                              aaaataacaa  TA-rich tract