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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatacttcaactgtgtttcttggttcactaggaggttgtaaacttgctattgaatacgtggttctcttcag

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 18
CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatacttcaactgtgtttcttggttcactaggaggttgtaaacttgctattgaatacgtggttctcttcag---
||||| || || || |||||||| || || ||||| |||||||| ||||| |||||||||||||||| |   ||| |  | || ||  | |            |  |      | |  |  ||         | || |    
CATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAGgtttgttatcttaagttatgctttgttgcctgtctattattactggctggggtggtctatttacaccattattgaacag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 18
CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatacttcaactgtgtttcttggttcactaggaggttgtaaacttgctattgaatacgtggttctcttcag---
||||| || || || |||||||| || || ||||| |||||||| ||||| |||||||||||||||| |   ||| |  | || ||  | |            |  |      | |  |  ||         | || |    
CATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAGgtttgttatcttaagttatgctttgttgcctgtctattattactggctggggtggtccatttacaccattattgaacag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 17
CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatacttcaactgtgtttcttggttcactag-gaggttgtaaacttgctattgaatacgtggttctc-ttcag---------
||||| || |||||||||||||||||||| || ||||| |||||||||||||||||||||||||||| | |  | ||  ||  ||| |   ||  |||  |       |  || | | |  ||||| | ||  |  ||| |         
CATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAGgtttgtgtgttcca-ttgcttttataatttatctattgtaacatcatgctagttttaaaatacttagtcattgttcggttcttgcag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 17
CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatacttcaactgtgtttcttggttcactag-gaggttgtaaacttgctattgaatacgtggttctc-ttcag---------
||||| || |||||||||||||||||||| || ||||| |||||||||||||||||||||||||||| | |  | ||  ||  ||| |   ||  |||  |      ||  || | | || ||| | | ||  |  ||||          
CATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAGgtttgtgtgatcca-ttgcttttataatttatctattgtaacattatgctagtttttaaattcttagtcattgttcaattcttgcag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 18
CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatac--ttcaactgt--gtttcttgg--ttca----------------ctaggaggttgtaaacttgctattgaatacgtggttctcttcag
||||| || || || ||||| || |||||||| ||||| ||||||||||||||||| || ||||||| | | |  |||  || |   | |||| |  || |                ||  ||| || |||| |  ||| | | || |||||| | | |||
CATTACACAGAATTACCAGACATCAAACGCGTGATTGTTAATACACATGCAATTGAACCTCAGgtttatgtgctgttctgcttttaatctcttagagtttaaaaattaaaacccattctgtgagcttttaaaatacctactcattatgtggttgt-tacag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 18
CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatacttcaactg--tgtttcttggttcactaggaggttgtaaacttgctattgaatacgtggttc---tcttcag
|||||  | ||||| || ||||| ||||| || |||||||| |||||||| |||||||||||||| || |    | ||||   ||||  ||| |  || |   | |  | || |||||    |   |     ||   | | |||
CATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAGgtatt-acctctgaactaattgttggttgctaaacaactcgatgttcaagttgctgaatatccctctactcaaatttgcag

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|122689653|gb|EC942290.1|EC942290
EST:     TGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG                         GCACTTGTAGAGTTCTTTGGTACGCTTTCACGAGAATGGGCTTTGGAGTGC
genomic: TGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAGgtttttatac ... ttctcttcagGCACTTGTAGAGTTCTTTGGTACGCTTTCACGAGAATGGGCTTTGGAGTGC
EST: gi|122690707|gb|EC956547.1|EC956547
EST:     GTGAATACACATGCAATTGAGCCACAG                         GCACTTGTAGAGTTCTTTGGTACGCTTTCACGAGAATGGGCTTTGGAGTGC
genomic: GTGAATACACATGCAATTGAGCCACAGgtttttatac ... ttctcttcagGCACTTGTAGAGTTCTTTGGTACGCTTTCACGAGAATGGGCTTTGGAGTGC