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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtggtttatcttggtgttgtattggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG

Basic information

species Vitis vinifera
transcript Vv03s0038g03270.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g39670.1 (Oryza sativa), 3'ss of exon 7
---------------------gtaattgagttgttgatgaa--ggttttt-ttttggcatctctatact-cttacatccaatggtgagtggtttatcttggtgttgtattggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
                     ||   |    | ||    |   ||||    |  |||   ||||  |||  || | ||| |||| ||   || ||  ||| | |  | |  |  ||| | || |||||||||||||| |||||||||||||||||| | || || ||||| ||||| || |||||||| || |||||  |||| ||    ||||| |
gtaaagacaatatagagcactgtggctccactcttttctagctggttgggatactggtccctctcgactgttttcttcctatggggacgtgtctaaattgttctcctctctg--cagCTATCTTTCCAAGAATGGACTCAACAGATGAGAGATATGTTGGATGCTAGGAAACGTGGTGATTTTGCATTTCGAGACAAAAATTTCAAGCAAGCCATAG

upper sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 7
gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtggtttatcttggtgttgtattggtt-cagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
        ||    ||  |  |  ||| | | ||  ||   | ||      ||||  ||  | |   | |       | ||  |   |  ||| | || ||||| |||||||| || |||||||| || ||||| ||||| ||||| |||||||||||||| ||||||||||| ||||| ||  | ||||| |
--------gtaaaagaccagagcatttctgttgctgctgcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG

upper sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G099598_T01 (Zea mays), 3'ss of exon 7
gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtg-gtttatcttggtgttgtattggtt-cagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
     | |    | |  | |  | | ||  || |  ||   | ||||       | |  |   |   | || |  | || ||  ||  |  ||| | || ||||| |||||||| || |||||||| || ||||| ||||| ||||||||||||||||| || || || || || ||||| ||  | ||||| |
----gtaaaagatcggagcatctctgttgctgtctgctgccttctctacggggtactattatctttatctaacaagatggtgcctttatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAGCGTGGGGACTTCGCCTTTCGCGATAAAGATTTCAAGGCAGCCATAG

upper sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G026767_T01 (Zea mays), 3'ss of exon 6
gtaattgagttgttgatgaaggtttttttttggcatctctatactct-tacatccaatggtgagtggtttatcttggtgttgtattggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
    |  | |     |      | |  ||     ||||  ||  ||| ||   ||  ||      |  | ||  |       |  ||   ||| |||| || ||||||||||| || |||||||| |||||||| || |||||||| ||||| |||| ||| |||   ||||| ||||||||  | || || |
---gtaaaataaaccagtgcactctggttcca--atcttcatgttctgtaggacctctgaaaccagcatcattct----ccattctg---cagCTGTCTTTTCAAGAATGGACACAGCAGATGAGGGATATGCTGGATGCAAGGAAACGTGGCGACTCTGCCTTCAAAGACAAAGATTTTAAGGCAGCAATCG

upper sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G48030.1 (Glycine max), 3'ss of exon 5
gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtggtttatcttggtgttgtattggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
        ||   |||||   |  ||   ||   || |   || | ||   |   ||| |  |   |     |||   ||| ||||||||||||||| |||||||| ||||| |||||||||||||||||||| || |||||||||||||| |||| |||||||||||||||||| ||||| || |||||||
--------gtaactgatgggtgcattgggtttaaatttac-tatttttg-gttggatgatatgccataaggtttgaatttggattggttcagTTGTCGTTCCAAGAGTGGACTCAACAGATGAGAGATATGCTGGAGGCAAGGAAGCGTGGAGACTATGCATTCCGTGACAAGGACTTTAAGACAGCCATTG

upper sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G00540.1 (Glycine max), 3'ss of exon 5
gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtggtttatcttggtgttgtattggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
        ||   |||||   |  ||  |||   || |   || | ||| ||   ||| || |   |     |||   ||| ||||||||||||||| || ||||| ||||| |||||||||||||||||||| |||||||||||||| || |||  |||||||||||||||||| ||||  || |||||||
--------gtaactgatgggtgcattggttttaaatttac-tattttta-attggatgatgtgccataaggtttgaatttggattggttcagTTGTCTTTTCAAGAGTGGACTCAACAGATGAGAGATATGCTGGAAGCAAGGAAGCGCGGAGACCATGCATTCCGTGACAAGGACTTTAGGACAGCCATTG

upper sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtggtttatcttggtgttgtattggtt-cagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
|||||  | | ||      || |||  |||      ||  |     ||| |   | |  ||| |   || |   | |  | ||| | || ||||| || |||||||||||||| ||||| |||| ||||||||| || ||| |||| || || ||     | ||||| || || ||||| ||||| ||||| |
gtaatcaaatggt------agttttggtttcaattgctaaaatgctttaaaaagagtcttgactaacttttggggtttatctatggatttcagTTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGGAAACGCGGTGATCAATCTTTCCGCGAGAAAGATTTCAAAACAGCCATCG

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|33405170|gb|CF210797.1|CF210797
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|110396180|gb|EC961861.1|EC961861
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|110358197|gb|EC922241.1|EC922241
EST:     GAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: GAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|110386358|gb|EC950948.1|EC950948
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|110368581|gb|EC932568.1|EC932568
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|30325969|gb|CD009231.1|CD009231
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|22014191|gb|BQ799225.1|BQ799225
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|33405090|gb|CF210717.1|CF210717
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|30328105|gb|CD011367.1|CD011367
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
EST: gi|30136281|gb|CB921619.1|CB921619
EST:     ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAG                         TTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG
genomic: ATCAGATCTTGGTTATGACACACTACAGAGATGATGAAGGAACCAATGAGgtaattgagt ... attggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatactcttacatccaatggtgagtggtttatcttggtgttgtattggttcagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG
      ctcttac  putative branch site (score: 3)
                             tttatctt  TA-rich tract