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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcataacctttgattgcttttcacctaatcacctaatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG

Basic information

species Vitis vinifera
transcript Vv01s0011g02080.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g33915.1 (Oryza sativa), 3'ss of exon 1
gtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcata-acctttgattgcttttcacctaatcacc-taatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
                                         |||  |         | |     | ||         ||||| |   |      |  | | |||      |  |  ||| ||    |   || |  |  |  |  |||||||||||||||||||||||| || |||| | ||||||||||  ||||||| ||    |||||||| || ||||||
----------------------------------------gccccatcgcgccaccgcgcacggcatt--------gttgctctcc-tccggccaggtccaaaagcagggtgcatttttcatgttatgatacatggttcctgttttcagGCAAAAACCACCAAGAAGATTGTGCTGAAGCTGCAATGCCAAAGCTGCAAGCATTACTCCCAGCACCCCATCAAG

upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g33880.1 (Oryza sativa), 3'ss of exon 2
---------------------------------------gtaacaatccatctat-----atccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcata-----acctttgattgcttttcacctaatcacc-taatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
                                       || ||  ||  |  ||     |       |  | ||     | || |  |  | |     |||   || | | |  ||   |     |  ||  |||   |         |||||       |  ||| ||    |   || |  |  |  |  |||||||||||||||||||||||| || |||| | ||||||||||  ||||||| ||    |||||||| || ||||||
gtactgtgacagtttatatatgattatgcagtgttgtgtgtgactctctgttcattagaaacgtacggtgtcatgattgatgtagcagtgatatgtgtctgtacaatgcatgtggcaataaccatcacgtagttttaattgcatgtggctttcagctgtgcatttttcatgttatgatacatggttcctgttttcagGCAAAAACCACCAAGAAGATCGTGCTGAAGCTGCAATGCCAAAGCTGCAAGCATTACTCCCAGCACCCCATCAAG

upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g33860.1 (Oryza sativa), 3'ss of exon 2
gtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcataacctttgattgcttttcacctaatcacctaatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
                                           |  |    |  |   || |||    || |  || ||   |  |||||   | |  ||      ||  | |  ||    | | |    |||  |       |||||||||||||||||||||||| || |||| | ||||||||||  ||||||| ||    |||||||| || ||||||
----------------------------------------gttcaatgcaaacatgtggtaataaccatcacgtagttt-taaagtatatgactttcagctgtgcatttttcatgttatgatacatggttcctgttt------tcagGCAAAAACCACCAAGAAGATTGTGCTGAAGCTGCAATGCCAAAGCTGCAAGCATTACTCCCAGCACCCCATCAAG

upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g33898.1 (Oryza sativa), 3'ss of exon 2
---------------------------gtaacaatccatct-atatccttatttccttggaaattt------taaccctttttttaagttgtgtg-atacttttctcagagattgctatttatatttttatatgccaaattttcata-----acctttgattgcttttcacctaatcacc-taatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
                           | |    |   | | ||   ||   ||| || ||||  |      | |   ||| | |  |||   || | || | |  ||   |     || ||  |||| || |  |  | |||||       |  ||| ||    |   || |  |  |  |  |||||||||||||||||||||||| || |||| | ||||||||||  ||||||| ||    |||||||| || ||||||
gtattgtgacagtttatatgtgattacgcagtgctgtgtgtgattgtctctcttcattagaaacatatggtgtcatgatttgtgtctgttcaatgcaaacatgtggcaataaccatcatgta-gttttaatgtatctgactttcagctgtgcatttttcatgttatgatacatggttcctgttttcagGCAAAAACCACCAAGAAGATTGTGCTGAAGCTGCAATGCCAAAGCTGCAAGCATTACTCCCAGCACCCCATCAAG

upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G05670.1 (Glycine max), 3'ss of exon 2
gtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcataacctttgattgctttt-cacctaatcacctaat-cagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
                                                              | | ||  | | | ||| |  | ||  |   ||      |   | |  |    |||| |  |      |  |  | |  |||   |||| ||||||||||||||||| || |||||||||||||||||||| ||||| || || ||||| ||  | || |||
-------------------------------------------------------------gttcgttggttaaatatttcgttataagtgcataggaattaggatctttttttttttgctgacaaaaatatatttttatttaaaatagGCTAAAACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG

upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G05670.2 (Glycine max), 3'ss of exon 2
gtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcataacctttgattgctttt-cacctaatcacctaat-cagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG----
                                                              | | ||  | | | ||| |  | ||  |   ||      |   | |  |    |||| |  |      |  |  | |  |||   |||| ||||||||||||||||| || |||||||||||||||||||| ||||| || || ||||| ||  | || |||    
-------------------------------------------------------------gttcgttggttaaatatttcgttataagtgcataggaattaggatctttttttttttgctgacaaaaatatatttttatttaaaatagGCTAAAACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAGGTTA

upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
gtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcataacctttgattgcttttcacctaatcacctaatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
                                      ||||| | |  ||||  |  |||        |  ||  |||   | ||    ||||   || ||||       ||| |||  ||  |||| |          | || |||| || |||||||||||||| || |||||||||||||||||||| ||||| || || ||||| ||  | || |||
-------------------------------------gtaacc-tctcgttaacctaagtg--------cataggaattaggagtt----tttttcctgacaaa-------aacattt--ttatttttaat---------tgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG

upper sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S115_63V6.1 (Physcomitrella patens), 3'ss of exon 3
-gtaac--aatccatctatat-ccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatattt--ttatatgccaaattttcataacctttgattgcttttcacctaatcacctaat--cagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
  || |  ||  |   | |||  |||   ||  |  |  || | || | |||     | ||  | |  ||  |       | | || |   |||||  ||   ||      | |  |    ||||| |    |   |  ||||   |     ||||| || ||||| |||||||| || || |||||||||||||||| |||||| |||||  | || ||||| ||||||
gttagcttaactctgttgtatgtcttggatcaat--atgttgtgactcctttcagtggctgcctaaatctcatgcagttaaatactttaactatttaatttagtgattgtatatgttgctttttgactatgctcaccagaatcttgtgcgtgcagGCTAAGACCACGAAGAAGATTGTGCTTAGGTTGCAATGCCAGGCCTGCAAGCACGTGACACAACATCCTATCAAG

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|34319843|gb|CF372597.1|CF372597
EST:     TGGAGGACAGACCAAACCTGTCTTCCACAAAAAG                         CCAAAAACCACCAAGAAGATAGTGCTGAGGTTGCAATGCCAGGGCTGCAAA
genomic: TGGAGGACAGACCAAACCTGTCTTCCACAAAAAGgtaacaatcc ... acctaatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatgccaaattttcataacctttgattgcttttcacctaatcacctaatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG
         aaattttcataa  TA-rich tract