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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatagattatcagaattttccagagaaatgagcctctagaaatcatgtcattaatttccttcaatcatgactttctagGTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACGGACCTGGGCGTGGCAGTAAAATCAATT

Basic information

species Vitis vinifera
transcript Vv19s0085g00870.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00870.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G41690.1 (Glycine max), 3'ss of exon 10
gtatgcatagat--tatca-gaattttccagagaaatgagcctctagaaatc-atgtcattaatttccttcaatcatgactttctagGTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACGGACCTGGGCGTGGCAGTAAAATCAATT
|||||| |||||  | |   ||||||     |  |  |   || || |  |  || | ||  || |   |   |  |||  ||| |||||||||||||||  ||||| ||||||||||||||||||||||||||  | |||||||  || |||||||||  || |
gtatgcttagatattgttgtgaatttcttcaaatacaggatctatacatcttgatcttatatatatatatgccttttgaacttccagGTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT

upper sequence: Vv19s0085g00870.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 10
gtatgcatagat--tatcagaattttccagagaaatgagcctctagaaatcatgtcattaatttccttcaa---tcatgactttctagGTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACGGACCTGGGCGTGGCAGTAAAATCAATT
|||||| |||||  | |||  | ||||   | | |  ||  |  |   ||  | |     |||   |  |    |  |||  ||| |||||||||||||||  || || ||||||||||||||||||||||||||  | |||||||  || |||||||||  || |
gtatgcttagatattgtcatgaatttcttcaaatacaagattagaaggattttttttaccattatatatatgccttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
















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|110361758|gb|EC925254.1|EC925254
EST:     GAGACTCTTAGAAAG                         GTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACG
genomic: GAGACTCTTAGAAAGgtatgcatag ... gactttctagGTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaaatgagcctctagaaatcatgtcattaatttccttcaatcatgactttctagGTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACGGACCTGGGCGTGGCAGTAAAATCAATT
                         cattaat  putative branch site (score: 3)
                                               ctttct  putative PPT
                        tcattaattt  TA-rich tract