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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtatcctggagatctatatatatatatatattcatacttgaatgctttgtatttggggagtttcaagttttggggagtagtagctgatgaccgattttgttgggaggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGGATACAAACCTACGGTTCTATGGTGATCCTTACCTCACCACAGCCGACAT

Basic information

species Vitis vinifera
transcript Vv11s0016g00400.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G05010.1 (Glycine max), 3'ss of exon 4
gtattgtatcctggagatctatatatatatatatattcatacttgaatgctttgtatttggggagtttcaagttttggggagtagtagctgatgaccgattttgttgggaggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGGATACAAACCTACGGTTCTATGGTGATCCTTACCTCACCACAGCCGACAT
                 | | |||   | | | |  |  || ||  ||| ||  | |||| ||    | | ||||  |  | || ||||| |  ||      |||||  |       |||||||||||| ||||| || |||||||| || || |||||||| ||||||||| | ||  | || ||||||||||||||||||||||||||| | || ||
---------------tgtttttatcattgtttcttattttatttccatgattaatgtttgtggtaaatgatgttt--gaaaata-tagctaacaacacggaatgttgcaaaactg-tagGTGCATTTGTGGGAGTTTCTTTGGAAGGAAATATAGTTGCAACCAGGATGGATGCCAATTTGCGCTTCTATGGTGATCCTTACCTCACCACATCTGATAT

upper sequence: Vv11s0016g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G17500.1 (Glycine max), 3'ss of exon 4
gtattgtatcctggagatctatatatatatatatattcatacttgaatgctttgtatttggggagtttcaagttttggggagtagtagctgatgaccgattttgttgggaggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGGATACAAACCTACGGTTCTATGGTGATCCTTACCTCACCACAGCCGACAT
               | | |   |||   |   ||||  || ||  ||| ||  | |||| |     | | ||||  |  |||| ||||| | |||      |||||  |       |||||||||||| |||||||| |||||||| || || |||||||| ||||||||| | ||  |  | || |||||||||||||||||||||||| | |||||
--------------tgtttttagtattgtttcttattt-tattttcatgattaatgtttgtgatagatgatgttt--gaaagta-tagctaacgacatggaatgttgccaaactg-tagGTGCATTTGTGGGAGTGTCTTTGGAAGGAAATATAGTTGCAACCAGGATGGATGCCAATTTGTGCTTTTATGGTGATCCTTACCTCACCACATCTGACAT
















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|30321963|gb|CD005225.1|CD005225
EST:     AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAG                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
EST: gi|30132536|gb|CB917875.1|CB917875
EST:     GCATGTGTTATACATACAGTTGTAGCANAG                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: GCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
EST: gi|22008024|gb|BQ793058.1|BQ793058
EST:     AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAG                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
EST: gi|33404487|gb|CF210114.1|CF210114
EST:     AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAG                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
EST: gi|110711818|gb|EE088731.1|EE088731
EST:     AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAA                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
EST: gi|27580296|gb|CB002991.1|CB002991
EST:     AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAG                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
EST: gi|30321887|gb|CD005149.1|CD005149
EST:     AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAG                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
EST: gi|28962594|gb|CB341627.1|CB341627
EST:     AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAG                         GTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG
genomic: AGCTGGAGATAGAGGTTCTGGCATGTGTTATACATACAGTTGTAGCAAAGgtattgtatc ... aggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcaagttttggggagtagtagctgatgaccgattttgttgggaggggaacagGTGCATTTGTTGGAGTGTCATTGGAAGGGAACATTGTTGCAACAAGGATGGATACAAACCTACGGTTCTATGGTGATCCTTACCTCACCACAGCCGACAT
                      agctgat  putative branch site (score: 4)
                                  attttgtt  TA-rich tract