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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTAAAATAAGTAAACCACGTTTCCTACTCCTCGGAGGAGCTCTGGAGTATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAGgtttggattgtttatctttttcttgtcttttcaaatatgtaatttaaatccctaggctgtaaatataacttagggtatcaagccccaacatattccttcgataatgtcttattgagtgaattgaggagtttcttgttcttattggttataacccgttttcag

Basic information

species Vitis vinifera
transcript Vv11s0016g00360.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA13G17510.1 (Glycine max), 5'ss of exon 3
ATCTAAAATAAGTAAACCACGTTTCCTACTCCTCGGAGGAGCTCTGGAGTATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAGgtttggattgtttatctttttcttgtcttttcaaatatgtaatttaaatccctaggctgtaaatataacttagggtatcaagccccaaca-tattccttcgataatgtcttattgagtgaattgaggagtttcttgttcttattggttataacccgttttcag
| | |||||   |||||||||||| ||| | || ||||| ||| ||||||||||||| |||||||| || ||||||||| ||||||||||||| ||||||||||         | |    ||||     || | |  | ||  | ||||    | | ||| | |         ||  | |   |  || | | |||| | |    || |                                                      
AGCAAAAATTGATAAACCACGTTTTCTAATACTTGGAGGTGCTTTGGAGTATCAGCGTGTTTCTAACCAGTTGTCAAGTGTTGATACTTTGTTACAGCAGgttttttccacccaaccagctcttaaaacttgataattttatgtcaaatatgcatgttgttact---------ggccttacatctgaataatcttcccttggatctgac------------------------------------------------------

upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA17G05000.1 (Glycine max), 5'ss of exon 6
ATCTAAAATAAGTAAACCACGTTTCCTACTCCTCGGAGGAGCTCTGGAGTATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAGgtttggattgtttatctttttcttgtcttttcaaatatgtaatttaaatccctaggctgtaaatataacttagggtatcaagccccaacatattccttcgataatgtcttattgagtgaattgaggagtttcttgttcttattggttataacccgttttcag
| | |||||   |||||||||||| ||| | || || || ||| ||||||||||||| |||||||| || ||||||||| ||||||||||||| |||||||||          | |    ||||     || | |  | ||  | ||||    | | ||| | |    | |    | | ||     ||  ||| |||| |||  || |                                                      
AGCAAAAATTGATAAACCACGTTTTCTAATACTTGGCGGTGCTTTGGAGTATCAGCGTGTTTCTAACCAGTTGTCAAGTGTTGATACTTTGTTACAGCAGgttctctccacccaaccagctcttaaaacttgataattttatgtcaaatatgcatgttgttactg--gccttacatgtgaa----taatctat-ccttggatc-tgac------------------------------------------------------

upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT4G33240.1 (Arabidopsis thaliana), 5'ss of exon 4
ATCTAAAATAAGTAAACCACGTTTCCTACTCCTCGGAGGAGCTCTGGAGTATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAGgtttggattgtttatc-tttttcttgtcttttcaaatatgta---atttaaatccctaggctgtaaatataacttagggtatcaagccccaacatattccttcgataatgtcttattgagtgaattgaggagtttcttgttcttattggttataacccgt-tttcag
 || || ||    || || ||| | ||| |||| |||||||||||||||||||||||  | ||||| ||  |||| |||||||| ||||||||||| ||||| || || |||| || | ||  || | ||| | ||||   |   |  | ||||| | | ||| ||  | ||   |  | ||  |   |   || ||          | || |    |  | ||||      ||     || ||   || |||  |  || ||||||
TTCAAAGATCGAGAAGCCGCGTCTGCTAATCCTTGGAGGAGCTCTGGAGTATCAGCGCATCTCTAACCAGCTGTCTAGTTTTGACACTTTGTTGCAACAGgtctgaatcgtttctcatcttctttatttttcccaataaccatggacatgaatccttcgactgaaagga-aaggaaaagcat--aattctgtcacatca-------gaggtttaggcggttaaatt------ttctgcattattgaaggctatctctggtgtttcag

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|71888054|gb|DT037109.1|DT037109
EST:     ATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAG                         GAAATGGACCATTTGAAGATGGCAGTTGCAAAGATCAATGTTCATCACCCC
genomic: ATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAGgtttggattg ... ccgttttcagGAAATGGACCATTTGAAGATGGCAGTTGCAAAGATCAATGTTCATCACCCC
EST: gi|71888025|gb|DT037080.1|DT037080
EST:     ATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAG                         GAAATGGACCATTTGAAGATGGCAGTTGCAAAGATCAATGTTCATCACCCC
genomic: ATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAGgtttggattg ... ccgttttcagGAAATGGACCATTTGAAGATGGCAGTTGCAAAGATCAATGTTCATCACCCC
EST: gi|71882383|gb|DT031438.1|DT031438
EST:     ATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAG                         GAAATGGACCATTTGAAGATGGCAGTTGCAAAGATCAATG
genomic: ATCAGCGGGTTTCTAATCACTTGTCAAGTTTTGATACTTTGTTGCAGCAGgtttggattg ... ccgttttcagGAAATGGACCATTTGAAGATGGCAGTTGCAAAGATCAATG