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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttcattgtttaatttttctgtgtcttctcctctctatacggttttggggcacttaaaatgtgggttgttctttcttcttttggagcaaacaaaattaagttgtacttctcattcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAG

Basic information

species Vitis vinifera
transcript Vv01s0011g03380.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g03380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G117786_T01 (Zea mays), 3'ss of exon 3
gttttcattgtttaatttttctgtgtcttctcctctctatacggttttggggc-acttaaaatgtgggttgttctttcttcttttggagcaaacaaaattaagttgtacttctcattcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAG
                            | |       ||  | |  |||     | ||   | |  | |  |||||     | |   |  ||||   |||  |     || |  |   | ||||||| || || |||||||| ||||| ||||||||||||||  |||||||||| || || || ||||| |||
---------------------------gtatggaactcatgggctcatggcattgcatagtgtattaggttgtctttgaaaatctcatgtgaacatgcttacctgaagattttgttatttgcagGGACTTTTACACTGTCCAACTTGGGTATGTTTGGTGTAGATCGGTTTGATGCAATCCTTCCACCTGGCCAG

upper sequence: Vv01s0011g03380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G24830.2 (Glycine max), 3'ss of exon 3
gttttcattgtttaatttttctgtgtcttctcctctctatacggttttggggcacttaaaatgtgggttgttctttcttcttttggagc-aaacaaaattaagttgtacttctcattcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAG
               | | | | ||  || |  |   | |  | | || |  ||   ||||  |  ||||  |||   | ||||       | | ||||| | |||| | |   |      |||| || ||||| || ||||||||||| |||||||| || |||||||||||||| || || || || || |||
--------------gtgtctttatgaattgtgattgttgtttgttattag--caaaaaaaaatttcgttgaacttgggtgttttaattttgacccaaatttaattgtgcctgcta------cagGAACTTTCACGCTTTCCAATTTGGGTATGTTTGGAGTTGACAGGTTTGATGCCATACTTCCACCAGGCCAG
















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|29785993|gb|CB343386.2|CB343386
EST:     TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAG                         GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG
genomic: TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAGgttttcattg ... attcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG
EST: gi|110399056|gb|EC965543.1|EC965543
EST:     TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAG                         GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG
genomic: TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAGgttttcattg ... attcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG
EST: gi|26259444|gb|CA810507.1|CA810507
EST:     TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAG                         GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG
genomic: TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAGgttttcattg ... attcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG
EST: gi|77583069|gb|DV220571.1|DV220571
EST:     TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAG                         GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG
genomic: TGTAGAGAAAGCTAGGGCAAAACAACTTCAGCCCCATGAGTACAATTCAGgttttcattg ... attcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttctttcttcttttggagcaaacaaaattaagttgtacttctcattcatccagGGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAG
                                       cttctcattcatcc  CT-rich tract
                     aaacaaaattaagtt  TA-rich tract