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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGTATAACTGCCCCTGATACAAAAAACCCGCTTTCTGCTCCTTATCCATTCAATTTGATGTTCCAGACCTCAATCGGCCCATCTGGCTTGAGCCCAGGgtaaatatatgattccaattcaaacaaatttacctatttcgtgataagctcatatgcaatttattctgcaaccagcctctgtttattgtcacttgttttatcttcataggtgtgcagccttatattatcctgtcttttttcttacatacaatctactgtag

Basic information

species Vitis vinifera
transcript Vv17s0000g00160.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g00160.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 5'ss of exon 2
ATGGTATAACTGCCCCTGATACAAAAAACCCGCTTTCTGCTCCTTATCCATTCAATTTGATGTTCCAGACCTCAATCGGCCCATCTGGCTTGAGCCCAGGgtaaatatatgattccaattcaaacaaatttacctatttcgtgataagctcatatgcaatttattctgcaaccagcctctgtttattgtcacttgttttatctt-cataggtgtgcagccttatattatcctgtcttttttcttacatacaatctactgtag
|||| ||   |||||||||||| || |||||||| |||| ||| || || |||||| | ||||||||||| || ||||||||  | ||  | |     ||||||  |||| | |    ||||      || ||| |     | | | | |||       || ||||||     |    ||| ||      |  ||||  || ||   |       |||                                            
ATGGGATTGTTGCCCCTGATACTAAGAACCCGCTCTCTGATCCCTACCCGTTCAATCTTATGTTCCAGACATCCATCGGCCCTACCGGTCTTAATGTTGGgtaagaatatcaat---gttcactttttttaacccaagagatta-atgttcac---tgtttaattctgttgtta--tgctgattggctgaatgtgttcaattttgtgtgaacaaacag--------------------------------------------

upper sequence: Vv17s0000g00160.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G041797_T01 (Zea mays), 5'ss of exon 2
ATGGTATAACTGCCCCTGATACAAAAAACCCGCTTTCTGCTCCTTATCCATTCAATTTGATGTTCCAGACCTCAATCGGCCCATCTGGCTTGAGCCCAGGgtaaatatatgattccaattcaaacaaatttacctatttcgtgataagctcatatgcaatttattctgcaaccagcctctgtttattgtcacttgttttatcttcataggtgtgcagccttatattatcctgtcttttttcttacatacaatctactgtag
| |  ||   |||||||||||||||||| |||||||||| ||| || ||||||||| | ||||||||||| || || |||||  ||||  | |||   ||||||  |||||       |     ||| | |     ||| ||| | |  |  ||   ||             |    | ||| |   |  | | |                                                                  
ACGACATTGTTGCCCCTGATACAAAAAATCCGCTTTCTGATCCCTACCCATTCAATCTTATGTTCCAGACATCTATTGGCCCCACTGGTCTTAGCGTGGGgtaagaatatgtccattctgtctgcaattatgttccttttgtggtgatttgctaaaaaaa---------ggtccaattttgtgtggcggaaatag------------------------------------------------------------------

upper sequence: Vv17s0000g00160.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM5G821551_T03 (Zea mays), 5'ss of exon 2
ATGGTATAACTGCCCCTGATACAAAAAACCCGCTTTCTGCTCCTTATCCATTCAATTTGATGTTCCAGACCTCAATCGGCCCATCTGGCTTGAGCCCAGGgtaaatatatgattccaattcaaacaaatttacctatttcgtgataagctcatatgcaatttattctgcaaccagcctctgtttattgtcacttgttttatcttcataggtgtgcagccttatattatcctgtcttttttcttacatacaatctactgtag
| || ||   ||||||||||||||| || || ||||||| ||| || ||||||||| | ||||||||||| || || |||||  ||||  | |||   |||| |  ||||   ||||            ||  || | | || ||  | || | |    || |||    ||  ||  ||  |||  |||  |     |                                                               
ACGGCATTGTTGCCCCTGATACAAAGAATCCACTTTCTGATCCCTACCCATTCAATCTTATGTTCCAGACATCTATTGGCCCCACTGGTCTTAGCGTGGGgtgagaatat--ctcca------------ttctctctgtggttat--gttccttttgtgttgattggctaaaaaggttcaattttgtgtggcggaaatag-------------------------------------------------------------

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|352781854|gb|FQ469152.1|FQ469152
EST:     TTCAATTTGATGTTCCAGACCTCAATCGGCCCATCTGGCTTGAGCCCAGG                         GTATATGCGGGCAGAGACAGCACAGGGCATTTTTGTAAAC
genomic: TTCAATTTGATGTTCCAGACCTCAATCGGCCCATCTGGCTTGAGCCCAGGgtaaatatat ... tctactgtagGTATATGCGGCCAGAGACAGCACAGGGCATTTTTGTAAAC