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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctgatgcattgaacatctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacatattgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA

Basic information

species Vitis vinifera
transcript Vv15s0021g01230.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 14
gtgagctgatgcattgaacatctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacatattgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA
      || |  | ||||  | |  | | |  ||   | | |||      | | || || ||    |||  || |  | |   || |||||||||||||| || || ||||||||||||||||| ||||| |||||||| |||||| |  ||||| |||| || ||||| ||  | || ||| | |||||  |||
-----gtggt-tactgaatcttttgacaagataaatgttacactgcttcatctatggtt-taagaacactcatggttttt---gttctgttgcagTTGAATCGACTTGTGACAGAAAAGTGGGTAGATGGGTGGGATGACCCTCGTTTGTTGACACTAGCAGGATTGCGGCGACGTGGAGTGTCATCAACTGCAA

upper sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 14
gtgagctgatgcattgaacatctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacatattgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA
             |  | |    ||   ||   ||  | | |  || ||| |  |  ||  || |     | |  | | |    ||   |||||| | ||    || |||||||| |||||||| ||||| |||||||||||||| ||  ||||| | || ||  | || || || || ||  | |||||| |||
------------gtatagcgctgattcttgtggagaattatatcaatcttatgatccttg-atatatggttctataatatggattggatttgcagCTAAATAAACTTGTGACAGAGAAGTGGGTAGATGGGTGGGATGATCCTCGCCTGTTGACACTTGCAGGACTACGGCGGAGAGGAGTATCATCAACAGCAA

upper sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 14
----gtgagctgatgcattgaacatctatat--atgcaaagct---tgaaactaagctttttgtgtttatattttcacatattgactc-----------taatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA
     |  | |  ||  || |||    | ||  || | | |||   |||   || | | | | | |  ||| ||||| ||  |   ||           |  ||| ||| |||||||||| || || |||||||| |||||||| ||||| ||||||||||| ||  |  ||||| | |||||| | || ||  |||| ||  | |||||  |||
gtatatatgttactgagttaaacgaggagatcaattctatgctatttgatgttatgatgtat-tatcaataatttcatatcatagttcatttgaacttgtgttgttctgctgcagTTGAATCGACTTGTGACAGAGAAGTGGGTAGATGGGTGGGATGATCCCCGCTTGTTGACACTGGCTGGTCTCCGGCGACGGGGAGTATCATCAACTGCAA

upper sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 15
gtgagctgatgcattgaacatctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacat------attgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA
||||    |   |||   || | || ||   |    ||||     |  || || || ||| | |||  |||      | |   | | ||    ||||  || | || || || || ||||| |||||||||||||| ||||||||||||||| | |||||| ||||||||||||| ||||| ||  ||||| ||||  |||
gtgaagcaaca-attttgca-caatgtaataatttgttgagttcta--ttattatgcttacaatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA

upper sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA20G25120.1 (Glycine max), 3'ss of exon 15
gtgagctgatg-cattgaaca-tctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacatattgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA
||||    |     ||| ||| | ||   ||     |  |   | ||   |  || || ||     ||| |  | |   | | ||    ||||  || | || || || || ||||| |||||||||||||| ||||||||||||||| | |||||| ||||||||||||| ||||| ||  ||||  ||||  |||
gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttatgatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA

upper sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 15
gtgagctgatgcattgaacatctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacatattgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA
||| | | |   | | ||| |   | |   ||| |  |   | |         |  |     |  |   |   ||  |||  | |  || | ||||||||   | | |||||| | ||||  |||||||||||||||||||| |||||| ||||| |  |||||||| |||| ||||| |||||||||||  | |
gtgggttaa-atactcaacttgcctgtgaacaatgtgttgtattttatgcagagaatcatgctggttgtaacatgtttcttttcttttgctacagTTGAATTACATAGTGACAAACAAGTATGTTGATGGTTGGGATGATCCACGTCTTTTGACACTTTCTGGTTTGAGACGGAGGGGTGTGACTTCAACTGCGA

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|33404073|gb|CF209700.1|CF209700
EST:     GGGAGTACTCGCGGTTGAATGTCACTAACACAGTGATGTCAAAGCGTAAG                         TTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGT
genomic: GGGAGTACTCGCGGTTGAATGTCACTAACACAGTGATGTCAAAGCGTAAGgtgagctgat ... gctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactaagctttttgtgtttatattttcacatattgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA
        tttttgtgtttatatt  TA-rich tract