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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatggctttacttgattttgttttgttccttttcatttttcctcattcatgttatgattctgtcattttatcttgtttccag

Basic information

species Vitis vinifera
transcript Vv11s0016g00700.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatggctttacttgattttgttttgttccttttcatttttcctcattcatgttatgatt--ctgtcattttatcttgtttccag
|||||||||||| |||||||||||||||||||| || || || |||||||| |||||||||||| | || ||||||||| ||  || |    | || | |||   || ||  |||  | ||||  |   |   ||  |||||     || || |   |  ||  |||
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagtttaattt---ttatttatttgtacttttttttggtgcggtgctgattgatcatctttgttattcattgacag

upper sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM5G835213_T01 (Zea mays), 5'ss of exon 8
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaa---atggctttacttgattttgttttgttccttttcatttttcctcattcatgttatgattctgtcattttatcttgtttccag--
||||||||||||||||||||| |||||||| || || || || || ||||| |||||||||||| |||||||||||||| ||     ||   || |     || ||  ||||| |  |  | ||||     | | |||| | ||   || || | ||  |   |  |   
AGATGCTAGGGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGGTTTGGTTTTGTTTCTTTCAGGAACCAGCAGgtagtgtcgccattatttaaaccctttgtgcattgttgccatgaacttttggagctgc-tgtt-tcatctcgttatgtcattattccttaacag

upper sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G008611_T02 (Zea mays), 5'ss of exon 8
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatggcttt---acttgattttgttttgttccttttcattttt------cctcattcatgttatgattctgtcatt--ttatcttgtttccag
||||||||| ||||||||||| |||||||| || || || || || ||||| |||||||||||| |||||||||||||| ||  |    |||   |     || ||  ||||| |  |  | ||||       ||  ||||| |  | ||    | |||  ||| |  | | |   
AGATGCTAGTGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGATTTGGTTTTGTTTCTTTCAGGAACCAGCAGgtagtgtcaccattttttaaaccctttgtgcattgttgccatgaacttttggagctgctgtttcatctcgttatgtcattattccttaacaggatgctca

upper sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G008611_T01 (Zea mays), 5'ss of exon 8
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatggcttt---acttgattttgttttgttccttttcatttttcctcattcatgttatgattctgtcattttatcttgtttccag--
||||||||| ||||||||||| |||||||| || || || || || ||||| |||||||||||| |||||||||||||| ||  |    |||   |     || ||  ||||| |  |  | ||||     | | |||| | ||   || || | ||  |   |  |   
AGATGCTAGTGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGATTTGGTTTTGTTTCTTTCAGGAACCAGCAGgtagtgtcaccattttttaaaccctttgtgcattgttgccatgaacttttggagctgc-tgtt-tcatctcgttatgtcattattccttaacag

upper sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA17G05530.4 (Glycine max), 5'ss of exon 8
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatgg---ctttacttg---attttgttttgttccttttcat-ttttcctcattcatgttatgattctgtcatttt---atcttgttt-ccag
 ||||| ||||| |||||||||||||| || || ||||| ||||| ||||||||||||||||| ||||| ||||||| | |||||| |   ||| | ||    ||||  | ||    |||||  | ||||||    | ||| || |||  | |  || |   ||    |||  |||
TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGGTTTGTTTCTTTTCGGAATCAGCAGgca-tgaaatagtcacttcatttccacatttattcttacagcttttggtgttttccattctaatggtaggatgttttggttctgtgattcaatttatcag

upper sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA17G05530.1 (Glycine max), 5'ss of exon 7
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatggctttacttgatttt-gttttgttccttttcatttttcctcattcatgttatgattctgtcattttatcttgtttccag
 ||||| ||||| |||||||||||||| || || ||||| ||||| ||||||||||||||||| ||||| ||||||| | |||||| |  | |||| ||||     ||  | |||     ||||  |  ||    || | ||  |                     
TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGgtttgtttcttttcggaatcagcaggca-tgaaatag--tcacttcatttccacatttattcttacagcttttggtgttttccattctaatggtag-------------------

upper sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA13G17200.2 (Glycine max), 5'ss of exon 7
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatgg---ctttact--tgattttgttttgttcc---tttt--catttttcctcattcatgttatgattctgtcattttatcttgtttccag---------------
 ||||| ||||| |||||||||||||| || || ||||| ||||| ||||| ||||||||||| ||||| ||||||| | |||||| |   ||| | |  |   ||| || | || |   ||||    |||||  |  ||    || | ||| | |||   | | ||| |||                  
TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAGgca-tgaaatcgtcacttcatttctacatttattctcttgcagattttggtgttttttgtgttttccattctaatt-tatcaggatgttttggttctgtgattcaatttatcag

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|110685954|gb|EE063126.1|EE063126
EST:     AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAG                         GAAGCCCAAAGTGCAATTAATGACTTAAATG
genomic: AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaat ... ttgtttccagGAAGCCCAAAGTGCAATTAATGACTTAAATG
EST: gi|110728255|gb|EE103663.1|EE103663
EST:     AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAG                         GAAGCCCAAAGTGCAATTAATGACTTAAATG
genomic: AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaat ... ttgtttccagGAAGCCCAAAGTGCAATTAATGACTTAAATG
EST: gi|156737274|gb|EV241395.1|EV241395
EST:     AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAG                         GAAGCCCAAAGTGCAATTAATGACTTAAATG
genomic: AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaat ... ttgtttccagGAAGCCCAAAGTGCAATTAATGACTTAAATG
EST: gi|161705551|gb|FC057541.1|FC057541
EST:     AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAG                         GAAGCCCAAAGTGCAATTAATGACTTAAATG
genomic: AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaat ... ttgtttccagGAAGCCCAAAGTGCAATTAATGACTTAAATG
EST: gi|110685748|gb|EE062738.1|EE062738
EST:     AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAG                         GAAGCCCAAAGTGCAATTAATGACTTAAATG
genomic: AAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaat ... ttgtttccagGAAGCCCAAAGTGCAATTAATGACTTAAATG