Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattaatgattaggattaacaagtagatgctgggtagtaggttttatgcaacattttgttggactttgcttgaactagcaaaagctccaactgtaggaggaattacttgccccagcactttcttagttttgattgtccatgtaattgtttgaggcatagtttgattatttgcttccttttttaatttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAAAGGTCAGGCAGTAGACATGTCTCAAGACCATAGACCTAGTTACCCATTA

Basic information

species Vitis vinifera
transcript Vv07s0005g02110.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g02110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G01270.2 (Glycine max), 3'ss of exon 2
gtaaattaatgattaggattaacaagtagatgctgggtagtaggttttatgcaacattttgttggactttgcttgaactagcaaaagctccaactgtaggaggaattacttgccccagcactttcttagttttgattgtccatgtaattgtt-tgaggcatagtttgattatttgcttccttttttaatttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAAAGGTCAGGCAGTAGACATGTCTCAAGACCATAGACCTAGTTACCCATTA
                                                                                       |  ||| |   ||   |  | ||       ||||||  ||||| |  | ||       || |||| |   | | ||    || | |||||| || | ||   ||   |||   ||||||||| ||||||||||| |||||||| |||||||| || || |||||  ||||  | ||||||||| |||| || || |||| ||| | || |
---------------------------------------------------------------------------------------cagcaaatactgggacagattct-------gcacttg-ttagtctctaatgcatgaacaactgttatctcgtaaagaggtatgacttgctttctatatttgcttt--cagGCTTCTAATGGTGGCCAATGCTGGCGACTGCCGAGCAGTTCTCTGTCGCAAAGGAGAGGCCATTGACATGTCTGAAGATCACAGGCCTATTTATCTATCA

upper sequence: Vv07s0005g02110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G01210.1 (Glycine max), 3'ss of exon 3
gtaaattaatgattaggattaacaagtagatgctgggtagtaggttttatgcaacattttgttggactttgcttgaactagcaaaagctccaactgtaggaggaattacttg-ccccagcactttcttagttttgattgtccatgta---attgtttgaggcata-gtttgattatttgcttccttttttaatttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAAAGGTCAGGCAGTAGACATGTCTCAAGACCATAGACCTAGTTACCCATTA
                                                                                                     | | ||  | | | | |       | ||  | | ||  |  | | |   ||   |||     ||  |||| ||   || || ||  | || ||  | |||   ||||||||| ||||||||||| |||||| | |||||||| || || |||||  ||||  | |||||||||||||| || || |||| ||| |||| |
-----------------------------------------------------------------------------------------------------gcactttttagtctctaatgtaagcataactgttatcttgtaaggaggtatgacttgctttctatatttgctttgctgatttctaatatacttctttcagGCTTCTAATGGTGGCCAATGCTGGCGACTGCAGAGCAGTTCTCTGTCGCAAAGGAGAGGCCATTGACATGTCTCAAGATCACAGGCCTATTTATCCATCA

upper sequence: Vv07s0005g02110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S59_140V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaaattaatgattaggattaacaagtagatgctgggtagtaggttttatgcaacattttgttggactttgcttgaactagcaaaagctccaactgtaggaggaattacttgccccagcactttcttagttttgattgtccatgtaattgtttgaggcatagtttgattatttgcttccttttttaatttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAAAGGTCAGGCAGTAGACATGTCTCAAGACCATAGACCTAGTTACCCATTA
                                                                          |    | |||   ||| |||  | |   ||||  ||  |      |  || | ||    | |||| |   |||    |||||    |||| | |||| |  |   || |||      |||||||   |  | |||||||||||||||||||| ||||||||| | || ||||| || ||||| ||    ||||| |||||||||   || || |   | |  
--------------------------------------------------------------------------gcgtcaacaatcactcgaac-atggatcgaatggctcactt----agcttttcagaa--ggttgttc---taaggtattgag----agttgggttatct--tgggttgttt------tgcagAAACTTGCTAGTTGCCAATGCTGGTGACTGTCGGGCAGTTTTGTGTCGAAAGGGGCAGGCCGTGCCGATGTCCCAAGACCATGATCCAAGCTCTGCTTGG

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|110712021|gb|EE089166.1|EE089166
EST:     GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAG                         AACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
genomic: GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAGgtaaattaat ... atttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
EST: gi|110699291|gb|EE076171.1|EE076171
EST:     GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAG                         AACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
genomic: GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAGgtaaattaat ... atttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
EST: gi|33402946|gb|CF208573.1|CF208573
EST:     GTGAGCAGTTCTTCTGGGACAACAGCACTCACTGCTCTGATATTTGGGAG                         AACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
genomic: GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAGgtaaattaat ... atttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
EST: gi|110700065|gb|EE077677.1|EE077677
EST:     GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAG                         AACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
genomic: GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAGgtaaattaat ... atttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
EST: gi|26264633|gb|CA815696.1|CA815696
EST:     GTGAGTAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAG                         AACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA
genomic: GTGAGCAGTTCTTCTGGGACAACAGCACTTACTGCTCTGATATTTGGGAGgtaaattaat ... atttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtaattgtttgaggcatagtttgattatttgcttccttttttaatttgtgcagAACTCTAATGGTTGCCAATGCTGGTGACTGCCGGGCAGTTCTTTGCCGAAAAGGTCAGGCAGTAGACATGTCTCAAGACCATAGACCTAGTTACCCATTA
                                        ttttaat  putative branch site (score: 3)
                                 cttccttttttaattt  CT-rich tract
                 atagtttgattattt  TA-rich tract