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'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgagccagattggagaaaaataaatttgagtgctggttgaatgtcaaatataatgtttctctcataagatctggaataatcaaattaacaaaacatgcttttttatcattctagATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGATCTTAAGCCTTACCCAGTAACATGCTATCTCGAGTATAAAGGTCACAAGG

Basic information

species Vitis vinifera
transcript Vv00s0227g00060.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G00540.1 (Glycine max), 3'ss of exon 3
gtaagtgag----ccagattggagaa--aaat----aaatt--tgagtgctggttgaatgtcaaatata-atgtttctctcataagatctggaataatcaaattaacaaa---acatgcttttttatcat-----tctagATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGATCTTAAGCCTTACCCAGTAACATGCTATCTCGAGTATAAAGGTCACAAGG
|| |||||     | | || | ||||  || |    |||||  | | | || | ||| |   | || |   ||| | | | |||  || |   ||||     ||||   |   || |  | |||| |        ||||| ||||||||||||| |||||||| ||||| || || || ||||||||||| ||||||||||| ||   ||| |||||| ||||||||||||| ||  | |
gtgagtgaaatatctatatcgaagaactaatttgcaaaattcttaattccttgctgacttatatatgtgtgtgtgtgtataatataatataatataactggtttaattcatttacttcttcttttctttctgtggtctagCTCAATATTGATCCTGAATCTTTAAAGCCAAAGCTTCCAAGTCGAAAAGAGCTTAAGCCTTATCCCACAACTTGCTATATCGAGTATAAAGGCCATGAAG

upper sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G28910.2 (Glycine max), 3'ss of exon 10
gtaagtgag----ccagattggagaaaaataaatttgagtgctggttgaatgtcaaatataatgtttctctcataa-gatctgga-ataatcaaattaacaaaaca---------------tgcttttttatc---attctagATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGATCTTAAGCCTTACCCAGTAACATGCTATCTCGAGTATAAAGGTCACAAGG
|| |||||     |   |||| ||||  |    | ||| |     ||   ||  |||| |    || ||  || |  ||  |  | |||   || | | ||| | |               | ||||| | ||    |||||| ||||||| ||||| |||||||| ||||| || || || |||||||| || ||||||||||| ||   |||||||||| ||||||||||||| ||  | |
gtgagtgaaatatctgtattgaagaactaattttctgattttatttttgttgcaaaatttttaattccttgcagagtgaaatatatatatataagtcagcaatataatggtataattcatttacttttctttctgtgttctagCTCAATATCGATCCTGAATCTTTAAAGCCAAAGCTTCCAAGTCGAAAGGAGCTTAAGCCTTATCCCACAACATGCTATATCGAGTATAAAGGCCATGAAG
















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|110378155|gb|EC943274.1|EC943274
EST:     TTGATCGCTGTTTGGACCTATATTTATGTCCTAGAGCCCGGAAGAAACGT                         ATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGAT
genomic: TTGATCGCTGTTTGGACCTATATTTATGTCCTAGAGCCCGGAAGAAACGTgtaagtgagc ... atcattctagATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGAT
EST: gi|33404441|gb|CF210068.1|CF210068
EST:     TTGATCGCTGTTTGGACCTATATTTATGTCCTAGAGCCCGGAAGAAACGT                         ATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGAT
genomic: TTGATCGCTGTTTGGACCTATATTTATGTCCTAGAGCCCGGAAGAAACGTgtaagtgagc ... atcattctagATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGAT
EST: gi|33404514|gb|CF210141.1|CF210141
EST:     TTGATCGCTGTTTGGACCTATATTTATGTCCTAGAGCCCGGAAGAAACGT                         ATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGAT
genomic: TTGATCGCTGTTTGGACCTATATTTATGTCCTAGAGCCCGGAAGAAACGTgtaagtgagc ... atcattctagATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcataagatctggaataatcaaattaacaaaacatgcttttttatcattctagATCAATATTGATCCCGAATCTTTGAAGCCCAAACTACCTAGTCGAAAAGATCTTAAGCCTTACCCAGTAACATGCTATCTCGAGTATAAAGGTCACAAGG
                       aattaac  putative branch site (score: 2)
                                      cttttttatcattct  putative PPT
               aataatcaaattaaca  TA-rich tract