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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatccatcattttttgttactagaatcaaatattgagtttggtcaactactctaagcttcttttaaaccatgcttcattggttatag

Basic information

species Vitis vinifera
transcript Vv18s0001g11700.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA09G18840.1 (Glycine max), 5'ss of exon 9
AGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatccatcattttttgttactagaatcaaatattgagtttggtcaactactctaagcttcttttaaaccatgcttcattggttatag
||||||||||||||||||  |||| |||||||| ||||| || ||| | |||||||| || ||||| ||||||||||| |||||||| |||||||||||||| ||   |  ||  |  |||           || |||   | ||       |||   |    || ||||||   ||| ||  |||| | |||
AGAAACCCGCAATAACAACCTGGAAATGCAATCAGTAAATAACAAATCTCTCATTGAAGAGCTTGATAAGCTTCTTGAGCGATTGCGTGTCCCTTCTGAGgtatgccttgtatactaattta-------ggccagata---acttc------ctagcttttatttattttaa-tgatgttttgttgggtgtag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA14G08520.1 (Glycine max), 5'ss of exon 2
AGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatccatcattttttgttactagaatcaaatattgagtttggtcaactactctaagcttcttttaaaccatgcttcattggttatag
||||||||||||||||||  |||| |||||||| ||||| || ||| | |||||||| || ||||| ||||||||||| |||||||| |||||||||||||| ||   |  ||| |  |||        |  || |||   | ||       |||   |    || ||||||   ||| ||  |||| | |||
AGAAACCCGCAATAACAACCTGGAAATGCAATCAGTAAATAACAAATCTCTCATTGAAGAGCTTGATAAGCTTCTTGAGCGATTGCGTGTCCCTTCTGAGgtatgccttgtatcctaattta-------agccagata---acttc------ctagcttttatttattttaa-tgatgttttgttgggtgtag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA17G36540.1 (Glycine max), 5'ss of exon 9
AGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatccatcattttttgttactagaatcaaatattgagtttggtcaactactctaagcttcttttaaaccatgcttcattggttatag
|||||| |||||||||||  |||| |||||||| ||||| || ||| | |||||||| || ||||| ||||||||||| |||||||| |||||||||||||| ||     ||| || |  |   | |  |  || |||   | || |   | ||  | ||   ||  | | ||  ||| ||  |||| | |||
AGAAACTCGCAATAACAACCTGGAAATGCAATCAGTAAATAACAAATCTCTCATTGAAGAGCTTGATAAGCTTCTTGAGCGATTGCGTGTCCCTTCTGAGgtatg-----cattatatccta--atttaagccagata---acttcg--tagct--tgta---tttatctgaatgatgttttgttgggtgtag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA04G03710.1 (Glycine max), 5'ss of exon 9
AGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatccatcattttttgttactagaatcaaat-attgagtttggtcaactactctaagcttcttttaaaccatgcttcattggttatag
 ||||||||||||||||||||||| ||||||  ||| || || | | | || ||| | || ||||| ||||||||||| | |||| |  ||||||||||||| ||   || |    |   |     |||  | |  |   |||  ||  ||||   ||      ||  |||||    || ||||||||   |||
TGAAACCCGCAATAACAAGTTGGAAATGCAAAATGTGAATAACAGAACTCTTATTCAAGAGCTTGATAAGCTTCTTGAGCAATTGAGTATCCCTTCTGAGgtatggcttcaagtggtgaattcagatagtttgagtttgatgaactt--tcaatagcttggtatttactttaa-tggtgtttcattgggcgtag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 9
AGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatccatcattttttgttactagaatcaaatattgagtttggtcaactactctaagcttcttttaaaccatgcttcattggttatag
|||||| || || |||||||| |||||||| ||||||||||||||||| ||||||||||||||||| ||  || ||||  || |||| || ||||||||||||||||   | |  ||| |  || |     ||   | |  | || | ||   || |  |||  |  || |   ||                 
AGAAACTCGAAACAACAAGTTAGAGATGCAGTCTGTAAACAATAAAGCTCTCATTGAGGAACTTGATAAAGTTATTGAGAGACTGCGTGTGCCTTCTGAGgtttgtttcactttttttgtgcttgcctc--tcttctgtctaattggttcgctta-tagaagtgttgttgattgcag----------------

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 5'ss of exon 9
AGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatccatcattttttgttactagaatcaaatat-tgagtttggtcaactactctaagcttcttttaaaccatgcttcattggttatag
|||||  || || |||||||| |||||||| ||||||||||||||||| ||||||||||||||||| ||  || ||||  || |||| || ||||||||||||||||   ||   ||||||  | ||    ||   | | |    |||||   ||  |  |||  |  || |   ||                 
AGAAATTCGAAACAACAAGTTAGAGATGCAGTCTGTAAACAATAAAGCTCTCATTGAGGAACTTGATAAAGTTATTGAGAGACTGCGTGTGCCTTCTGAGgtttgtt--tcactctttttttctgcttacttctcttctgtctaattggttcgcttatagaagtgttgttgattgcag----------------

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|30305614|gb|CB982408.1|CB982408
EST:     GTCCCTTCTGAG                         TATGCAGCATGTCTAACTGGAGGTCCCTTTGATGAGTGCACGCATGCTGCA
genomic: GTCCCTTCTGAGgtttgttatc ... ttggttatagTATGCAGCATGTCTAACTGGAGGTCCCTTTGATGAG-GCACGCATGCTGCA
EST: gi|254916610|gb|GR905436.1|GR905436
EST:     TCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAG                         TATGCAGCATGTCTAACTGGAGGTCCCTTTGATGAGGCACGCATGCTGCAA
genomic: TCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTGAGgtttgttatc ... ttggttatagTATGCAGCATGTCTAACTGGAGGTCCCTTTGATGAGGCACGCATGCTGCAA