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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattcagttttttcatcttccaatgagataatttaacattttctctgtttcctattgtatccagagacactctctgatgtgaatttattcagGATAAATTGAAGTTGAGACTAAAGACATTAGAGGAAGGCTTAAAGCAAGTGTCAAGTTTCTCAGAGAATCCTTACCTGTCCTGTCGATCCCCAAAACCCG

Basic information

species Vitis vinifera
transcript Vv00s0194g00260.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G01060.1 (Glycine max), 3'ss of exon 5
gtaagtattcagttttttcatcttccaatgagataatttaacattttctctgtttcctattgtatccagagacactctctgatgtgaattta--ttcagGATAAATTGAAGTTGAGACTAAAGACATTAGAGGAAGGCTTAAAGCAAGTGTCAAGTTTCTCAGAGAATCCTTACCTGTCCTGTCGATCCCCAAAACCCG
|||   || |   |||||  || ||||   |   |  | ||    || |    ||  || |          ||  | | || |||   ||||  | ||||||||| |||||||||| || |  ||| |||||||||||||||||||  | || ||||   ||   | |    |  |||| | |  ||| |||||| | |
gtattcatcctacttttttgtcctccatgtaagcatctaaatcaatttttaacttattacta---------acgttatgtggtgt---tttaactccagGATAAACTGAAGTTGAGGCTTAGAACACTAGAGGAAGGCTTAAAGCATTTCTCCAGTTATCCAATCACTTTGAATGTGTCTTATGCATCTCCAAAAGCAG
















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|46918886|gb|CN548215.1|CN548215
EST:     ACAAACTAGCTATATCAGAGAGAACAGCCAAGGCAGAAGCACAATTGAAA                         GATAAATTGAAGTTGAGACTAAAGACATTAGAGGAAGGCTTAAAGCAAGTG
genomic: ACAAACTAGCTATATCAGAGAGAACAGCCAAGGCAGAAGCACAATTGAAAgtaagtattc ... atttattcagGATAAATTGAAGTTGAGACTAAAGACATTAGAGGAAGGCTTAAAGCAAGTG
EST: gi|110392216|gb|EC957479.1|EC957479
EST:     ACAAACTAGCTATATCAGAGAGAACAGCCAAGGCAGAAGCACAATTGAAA                         GATAAATTGAAGTTGAGACTAAAGACATTAGAGGAAGGCTTAAAGCAAGTG
genomic: ACAAACTAGCTATATCAGAGAGAACAGCCAAGGCAGAAGCACAATTGAAAgtaagtattc ... atttattcagGATAAATTGAAGTTGAGACTAAAGACATTAGAGGAAGGCTTAAAGCAAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttctctgtttcctattgtatccagagacactctctgatgtgaatttattcagGATAAATTGAAGTTGAGACTAAAGACATTAGAGGAAGGCTTAAAGCAAGTGTCAAGTTTCTCAGAGAATCCTTACCTGTCCTGTCGATCCCCAAAACCCG
                                  ctctgat  putative branch site (score: 4)
                                              tttattc  putative PPT
                                          tgaatttatt  TA-rich tract