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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG

Basic information

species Vitis vinifera
transcript Vv12s0035g01980.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G00630.1 (Glycine max), 3'ss of exon 1
gttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
                                           |  | |  | |||   ||||||   |  | || ||  ||||   |   | || ||          |||       |||||| ||||||||||| |||||||||||||||||||
------------------------------------------gtacgctactctttctcgtttttctttattattatttttattcacaccctcttctt-------ctcttgc-----ctgcagATGTTGAAAAGTTTTACCAGCAGTGCGATCCTG

upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G40170.1 (Glycine max), 3'ss of exon 1
gttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtatt-ttgatgattttgttgaatgggtgtttgtgggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
                                | |      | | |     |||  |   |||| | ||| | || ||  |||| ||  | |||||    | |   |  || |     ||||||| ||||||||||| ||||||||||||||||| |
--------------------------------gtacgctactctttcgccctttcctcctttttattcttttattatttatattcttttttattttac--actctcttcttctcttgcttgcagACGTTGAAAAGTTTTACCAGCAGTGCGATCCCG
















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|30296137|gb|CB972931.1|CB972931
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|110712767|gb|EE088111.1|EE088111
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|161715590|gb|FC068346.1|FC068346
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|110368641|gb|EC932630.1|EC932630
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|110702763|gb|EE079018.1|EE079018
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
              ttttgat  putative branch site (score: 4)
            tattttgatgatttt  TA-rich tract