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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattggtccttcaaattcgtttgctatgttttttttctagatttcctttttccttttcaactttatgaaatttgttgtttgactgttcatatagGGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATCTGCTACTTGCATGAATCTCTTAAAGCTTCCACCATACAGAAG

Basic information

species Vitis vinifera
transcript Vv05s0077g00470.t01
intron # 25
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: GLYMA17G04180.1 (Glycine max), 3'ss of exon 24
----------------------------------------------------gtaattggtccttcaaattcgtttgctatgttttttttctagatttcctttttcctttt---caactttatgaaatttg--ttgtttgac---tgttcatatagGGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATCTGCTACTTGCATGAATCTCTTAAAGCTTCCACCATACAGAAG
                                                     |  |   | ||   | |    | | | | ||||  |||||   ||   | | |||      |||   ||  | ||| |  |||| |||    | |||  |||||||| | |||| |||   ||||||| | |||||||| ||||||||||| |||||||| ||||||||  |||||||||| || || | |||
gtgaatgctgctacagaaattatgttctgatatatatttaatgctagcattaattttacatactattactcaagtggttttcttttccttctatgattatgtatacctggaagacaagaataacagattggaattgtctgatgtttcttctcatagGGCTTCCGGTAATGCCGTTGAAGAATCACTTGACCGATTACCAACATCGGCTACTTGTATGAATCTACTAAAGCTTCCGCCTTATACAAG

upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: GLYMA07G36390.1 (Glycine max), 3'ss of exon 24
----------------------------------------------------gtaattggtccttcaaattcgtttgctatgttttttttctagatttcctttttcctttt---caactttatgaaatttg--ttgtttgac---tgttcatatagGGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATCTGCTACTTGCATGAATCTCTTAAAGCTTCCACCATACAGAAG
                                                     |  |     ||   | |    | | | | ||||| |||||   ||   | |  ||      |||   ||  | ||| |  |||| |||    | |||  |||||||| | |||| |||  |||| ||| | |||||||| ||||||||||| |||||||| ||||||||  |||||||||| || || | |||
gtgaatgctgctacagaaattatgttctgatatttatttaatgctagcattaattttacacactattactcaagtggttttctttttcttctatgattatgtatatctggaagacaagaataacagattggaattgtctgatgtttcttctcatagGGCTTCCGGTAATGCCGCTGAGGAATCACTTGACCGATTACCAACATCGGCTACTTGTATGAATCTACTAAAGCTTCCGCCTTATACAAG
















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|161710134|gb|FC061032.1|FC061032
EST:     GGCCCACTGCTTGGATTCAAATACCTTGAGCCTTTATTTTGCATACAAAG                         GGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATCTGC
genomic: GGCCCACTGCTTGGATTCAAATACCTTGAGCCTTTATTTTGCATACAAAGgtaattggtc ... gttcatatagGGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATCTGC
EST: gi|45770686|gb|CN006538.1|CN006538
EST:     GGCCCACTGCTTGGATTCAAATACCTTGAGCCTTTATTTTGCATACAAAG                         GGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATTTGC
genomic: GGCCCACTGCTTGGATTCAAATACCTTGAGCCTTTATTTTGCATACAAAGgtaattggtc ... gttcatatagGGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttcctttttccttttcaactttatgaaatttgttgtttgactgttcatatagGGCTGCTGGTAGTGCTTCTGAAGAAGCTCTTGACCGGTTACCAACATCTGCTACTTGCATGAATCTCTTAAAGCTTCCACCATACAGAAG
                                     gtttgac  putative branch site (score: 4)
                   aactttatgaaattt  TA-rich tract