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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcaattactttatgtccttgccagcatttctttcctcatttaatgtgatatactggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACATTAAATCAAGTAACATTTTGATTGATGATGATTTCAATGCCAAGGTTTCT

Basic information

species Vitis vinifera
transcript Vv14s0060g00460.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G28490.1 (Glycine max), 3'ss of exon 3
------------------------gtaagtcaat-tactttatgtccttgccagcatttctttcctcatttaatgtgatatactggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACATTAAATCAAGTAACATTTTGATTGATGATGATTTCAATGCCAAGGTTTCT
                            |    | || |     | |||      || |   | || |||||| |  ||||||| ||| ||| ||||| || |||||||| || || |||||||| ||||| ||||| || || || ||||| ||||| || ||||||||||| ||||||||||||||||||
gtgagttgctttgtctgtgctccttcgggcttttgtagtcctcattcttagggttatcttagtgctaatttaaagcaatatacttgtttcagGCTTGCATATTTGCATGAAGCGATCGAGCCAAAGGTGGTACACCGAGATATCAAGTCAAGCAACATATTAATTGATGATGACTTCAATGCCAAGGTTTCT

upper sequence: Vv14s0060g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G38800.1 (Glycine max), 3'ss of exon 3
gtaagtcaattactttatgtccttgccagcatttctttcctcatt-taatgtgatatactggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACATTAAATCAAGTAACATTTTGATTGATGATGATTTCAATGCCAAGGTTTCT
|| |||   |   | | |||   | | |   ||||  |  || |  |||    || |||  ||| ||| || || || |||||||| || ||||| ||||| ||||||||||| ||  | || ||||| ||||| || ||||||||||||||||||||||||||||||
gtgagtgtctccatctgtgttgcttctattttttccctagtcctcataaaccaatttacatgtttcagGCTAGCGTATTTGCATGAAGCAATTGAACCAAAGGTGGTGCACCGTGATGTAAAGTCAAGCAACATATTAATTGATGATGATTTCAATGCCAAGGTTTCT

upper sequence: Vv14s0060g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G22550.1 (Glycine max), 3'ss of exon 3
------------------------gtaagtcaat-tactttatgtccttgccagcatttctttcctcatttaatgtgatatactggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACATTAAATCAAGTAACATTTTGATTGATGATGATTTCAATGCCAAGGTTTCT
                          | |    | || |     | |||      || |   | || |||| | |  |||||||  ||  || ||||| || |||||||| || ||||||||||| ||||| ||||| || || || || || ||||| || |||||||| || || |||||||||||||||
gtgagttgctttgtctatgctccttcatgcttttgtagtcctcattcttagggttatcttagtgctaatttgaagcaatatacttattttagGCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATATCAAGTCCAGCAACATATTAATTGATGACGACTTTAATGCCAAGGTTTCT

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|110725970|gb|EE102993.1|EE102993
EST:     TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGC                         TCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT
genomic: TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGCgtaagtcaat ... ctggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT
EST: gi|110415976|gb|EC981921.1|EC981921
EST:     TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGC                         TCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT
genomic: TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGCgtaagtcaat ... ctggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT
EST: gi|34543460|gb|CF511692.1|CF511692
EST:     TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGC                         TCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT
genomic: TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGCgtaagtcaat ... ctggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT
EST: gi|161719711|gb|FC065745.1|FC065745
EST:     TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGC                         TCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT
genomic: TTTCTTACTTGGGATGCCCGCATGAAGATTCTTCTCGGGACAGCTAAGGCgtaagtcaat ... ctggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttatgtccttgccagcatttctttcctcatttaatgtgatatactggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACATTAAATCAAGTAACATTTTGATTGATGATGATTTCAATGCCAAGGTTTCT
                              atttaat  putative branch site (score: 4)
                              atttaatgtgatata  TA-rich tract