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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttattcttttctaacttcactcattttcttattttcaggatgatttccttttctttttctttcttcttatttgatgaatacaataatgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCATCAAAGATTTCATGATTCAGGCTGGTGATTTTGTCAAG

Basic information

species Vitis vinifera
transcript Vv13s0084g00620.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0084g00620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G057329_T01 (Zea mays), 3'ss of exon 2
gtttttattcttttctaacttcactcattttcttatttt-caggatg-atttccttttctttttctttcttcttatttgatgaatacaataatgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCATCAAAGATTTCATGATTCAGGCTGGTGATTTTGTCAAG
 |      |   ||    |  || | ||    ||| ||| ||   || | |      ||| ||   |  ||  || | |     |   ||  ||||| ||||||||  ||  || ||    ||||| ||||| ||||| ||||| || || |||||||||||||||||||||| |||||| ||  | |||
-tcaaggataagttgctccagcaattatgaaattactttgcactttgcagtcagcaatctgttatatgatttctaatggtcagtttttatgttgatt-gcagAAAAAATGCTTTGCCACAAGGTTATAAGGGCTGCCAATTCCATAGAGTGATCAAAGATTTCATGATTCAGGGTGGTGACTTCTTGAAG

upper sequence: Vv13s0084g00620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G26260.1 (Glycine max), 3'ss of exon 2
-------gtttttattcttttctaacttcactcattttcttattttcaggatgatttccttttctttttctttcttcttatttgatgaatacaataatgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCATCAAAGATTTCATGATTCAGGCTGGTGATTTTGTCAAG
        || | |   ||||||   |||| | |   |   |    ||| |      |           |  |  | || | | ||||      | ||  | | ||| ||||| ||| | ||||||||||||||||| || || || || || || || || ||||| ||||||||||||||||||||||| |||
acacatttttatcaccgttttctgttttcagtgaaaatgaaaa---cagaaaacaaccaaaccaaacacccctaatattttgttatgatc----tgatcttatacagGAAAGCAGGACTGCCTGTTGGTTACAAGGGTTGTCAATTTCATAGAGTTATTAAGGATTTTATGATTCAGGCTGGTGATTTTGTAAAG

upper sequence: Vv13s0084g00620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G11960.1 (Glycine max), 3'ss of exon 2
-----gtttttattcttttctaacttcactc---attttcttattttcaggatgatttcctttt--ctttttctttcttcttatttgatgaatacaataatgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCATCAAAGATTTCATGATTCAGGCTGGTGATTTTGTCAAG
     || ||||||   | | ||    |  |   |||| | | |||    | ||  ||    ||  ||  | |||| || | || ||||           | ||| |||| ||||| ||| | ||||||||||||||||| || || || || || || || || ||||| ||||||||||| ||||||||||| |||
agatggtgtttattgactgccaaaaggatactgaatttgcctttttagtaggtggctttaagttaactaatacttttttatgatctgatt----------ttattggcagGAAAGCAGGACTGCCTGTTGGTTACAAGGGTTGTCAATTTCATAGAGTTATTAAGGATTTTATGATTCAGGCCGGTGATTTTGTAAAG

upper sequence: Vv13s0084g00620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G37190.1 (Glycine max), 3'ss of exon 2
----gtttttattcttttctaac------ttcactcattttcttattttcaggatgatttccttttctttttctttcttcttatttgatgaatacaataatgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCATCAAAGATTTCATGATTCAGGCTGGTGATTTTGTCAAG
      |  ||||   | | ||       || | |  ||  ||| ||   |||    |||   ||   |  |  || || | || ||||           | |||  ||| ||||  ||||| ||||||||||||||||  || || || || || || || || ||||| |||||||||| |||||||||||| |||
ttattctcgtattgactgccaaaaggatattgaatgtttgcctttttagtaggtgagtttaaattgactaatactttttatgatctgatc----------ttattgacagGAAAGTAGGATTGCCTGTTGGTTACAAGGCTTGTCAATTTCATAGAGTGATTAAGGATTTTATGATTCAGGATGGTGATTTTGTAAAG

upper sequence: Vv13s0084g00620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G38730.1 (Arabidopsis thaliana), 3'ss of exon 1
------gtttttattcttttctaacttcactcattttcttattttcaggatgatttccttttctttttctttcttcttatttgatgaatacaataatgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCATCAAAGATTTCATGATTCAGGCTGGTGATTTTGTCAAG
       |   ||   |    |   ||     | ||   ||||||  ||     ||| |  |||  |  | | |     |||| |             |||| |||||||||||||   ||  |||||||||| | ||| ||||| ||||| |||||||||||||| ||| ||||   |||||||||| | |||
aagcggatagatacaatacaatggtttggactaattgagtattttttgg-----ttcttaatctaatcttctttcacgttttggttgcctttggtgcaattt-cagAAAAGCTGGAAAGCCGCTTGGTTACAAAGAATGTCAGTTTCACAGAGTCATCAAAGATTTTATGGTTCAAAGTGGTGATTTTCTTAAG

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|110689345|gb|EE065486.1|EE065486
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|110369676|gb|EC933841.1|EC933841
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|30330499|gb|CD013761.1|CD013761
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|30330447|gb|CD013709.1|CD013709
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|71890647|gb|DT039702.1|DT039702
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|27586714|gb|CB009409.1|CB009409
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|110397718|gb|EC963561.1|EC963561
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|110377315|gb|EC942381.1|EC942381
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|71875212|gb|DT024267.1|DT024267
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|71871923|gb|DT020978.1|DT020978
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|110421609|gb|EC987908.1|EC987908
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|110408091|gb|EC973714.1|EC973714
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
EST: gi|71876171|gb|DT025226.1|DT025226
EST:     GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAG                         AAAAGCTGGGTTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT
genomic: GCCCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACTGGCGAGTACAGgtttttattc ... tgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttccttttctttttctttcttcttatttgatgaatacaataatgatttgcagAAAAGCTGGATTACCTGTTGGTTACAAGGGATGCCAGTTCCACAGGGTCATCAAAGATTTCATGATTCAGGCTGGTGATTTTGTCAAG
                           atttgat  putative branch site (score: 5)
                         ttatttgatgaataca  TA-rich tract