Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcctatcctatttacttccacttttgccattctatttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG

Basic information

species Vitis vinifera
transcript Vv04s0023g03620.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G08290.1 (Glycine max), 3'ss of exon 1
gtatgcctatcctatttacttccacttttgccattctatttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
        |||| |   | |||| ||  |||     |  || |  | |     |  |   ||  |         |||   |||     | |   | ||| | | |    | ||||    |||||||| |||||||||||||||||||| ||||||||||| || || ||||| |||||  || ||||||| |||||||| ||||| || ||||| || || |
-----gtaatcccag--atttcccctcgtgcg---ttgatttcagacagccccataccaatttctagggtttttattgatgttgcggtaacatatgtttgattgtattgctttcttcaacagGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGAGATTACTCTCCTTCTCGATTTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G36990.1 (Glycine max), 3'ss of exon 1
-----gtatgcctatcctatttacttccacttttgccattctat--ttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
         |  |  ||    | | |  | ||   | |   |||  || | ||| ||||   | ||||  |  | |  |   |    ||||| ||| ||    | || |||| | |||        |||||||| |||||||||||||||||||| ||||||||||| || || ||||| |||||  || ||||||| |||||||| ||||| || ||||| || || |
gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcgg-tagcagttttttcatcg----tattgattt-cttcaa-------cagGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTCTCGATTTCAAGCTCAAGCAGACGCTGTGAATCTCATTTGCG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G05250.2 (Glycine max), 3'ss of exon 1
---------gtatgcctatcctatttacttccacttttgccatt-ctatttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
         || |  |  || |  ||| || ||    ||||||| | ||  | | |     ||    |     || ||      || |    ||| || |  |||| | |  ||||   | |  | ||  ||||||||||||||||||| |||||||| ||||||||||| || || ||||| |||||  || ||||||| || ||| | |||||||| |||||||| || |
gtaaaccctgtttctccttcgt-cttaatttcagccatgccattacgatccctttactccaatcaattagggtttgttctttcgatcacttgtttatctctaattactattttttgtg-cgtaataat--agGCGACTATGATCTGTATTGACAATTCGGAATGGATGCGTAACGGGGATTACTCTCCTTCTCGATTTCAAGCCCAAACAGACGCCGTCAATCTTATTTGCG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G23590.2 (Glycine max), 3'ss of exon 1
----------------------------------------------gtatgcctatcctatttacttccacttttgccattctatttcctaat-atttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG--------------
                                               |     ||  | | | | ||    |||   ||||  ||  |    | ||   || |   ||| ||  |       |  | || |       |  | | |   | ||  |   | |     ||||||||||||||||||| |||||||| ||||||||||| || || ||||| |||||  || ||||||| || ||||| |||||||  ||||| || || |              
gtaaatcccttttctccttcgtcttaatttcagccatgccactacaatccctttaatccaatcaattagggtttgttcatttgatcactcgtttatcactaattgctttttttgtgtgtgtgtgtgtgtgtgtgtgt-gtgtgtgtgtgtgtgtgtgtgtgtataataggcgactatgatctgtatagACAATTCGGAATGGATGCGTAACGGGGATTACTCTCCTTCTCGATTTCAAGCCCAAGCAGACGCCGCCAATCTCATTTGCGGTGCTAAAACCCAG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G23590.1 (Glycine max), 3'ss of exon 1
----------------------------------------------gtatgcctatcctatttacttccacttttgccattctatttcctaat-atttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
                                               |     ||  | | | | ||    |||   ||||  ||  |    | ||   || |   ||| ||  |       |  | || |       |  | | |   | ||  |   | |     ||||||||||||||||||| |||||||| ||||||||||| || || ||||| |||||  || ||||||| || ||||| |||||||  ||||| || || |
gtaaatcccttttctccttcgtcttaatttcagccatgccactacaatccctttaatccaatcaattagggtttgttcatttgatcactcgtttatcactaattgctttttttgtgtgtgtgtgtgtgtgtgtgtgt-gtgtgtgtgtgtgtgtgtgtgtgtataatagGCGACTATGATCTGTATAGACAATTCGGAATGGATGCGTAACGGGGATTACTCTCCTTCTCGATTTCAAGCCCAAGCAGACGCCGCCAATCTCATTTGCG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G36990.2 (Glycine max), 3'ss of exon 1
-----gtatgcctatcctatttacttccacttttgccattctat--ttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
         |  |  ||    | | |  | ||   | |   |||  || | ||| ||||   | ||||  |  | |  |   |    ||||| ||| ||    | || |||| | |||        |||||||| |||||||||||||||||||| ||||||||||| || || ||||| |||||  || ||||||| ||                             
gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcgg-tagcagTTTTTTCATCG----TATTGATTT-CTTCAA-------CAGGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTCTCGATTTCAAGC-----------------------------

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G38630.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatgcctatcctatttacttccacttttgccattctatttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
                                  |   ||||| | || || | ||   | ||||| || |  |   | |      | |  | || || | ||        |  || |  ||||||||||||| ||||||||||| ||||| ||||||||||| || ||||| |||||  |||| || ||||| ||| | || || ||||||||| | || |
---------------------------------gtgattttccaattacttgtgct---tatcttcgttgatgatccacg-----ttgaatgctttttctcatcgatgatttcttgttgtagGCGACTATGATATGTATCGACAACTCCGAGTGGATGCGAAACGGAGATTACTCTCCGTCTAGGTTACAGGCGCAAACGGAAGCTGTTAATCTTCTTTGCG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S14_318V6.2 (Physcomitrella patens), 3'ss of exon 1
-------------------------------------------------------------------------gtatgcctatcctatttacttccacttttgccattctatttcctaat-atttatactctttttcttctttcacaaatta-gggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
                                                                         || |||| ||| |    | |||   |||     ||   || |  | |   ||          | | | | ||    |   ||||    |       | ||  |  ||  ||   | |  | |||||||| ||| |||| || ||||| || || |||||||| || ||||||||||| || ||||| ||||| |||||||| || ||  | || || || || |
gtaagtggaacatgggacgtagtgtattagggttatttgtaggtgcgaattggtttcttaggattcagtgatagtctgccgatcttg--aatttctggtttgtttttttcgttactgagttgattgagggagcactgtgcgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
gtatgcctatcctatttacttccacttttgccattctatttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
              |||  ||    ||| |  | |   ||   | |       ||| |   |    |||       ||| |||           | ||  |  ||  ||   | |  | |||||||| ||| |||| || ||||| || || |||||||| || ||||||||||| || ||||| ||||| |||||||| || ||  | || || || || |
-------------gtttgtttt---tttcgttactgagttgattgaggga-gcactgtgcgtgcatttttggtgggtagagtt-----ggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ17485 (Selaginella moellendorffii), 3'ss of exon 1
gtatgcctatcctatttacttccacttttgccattctatttcctaatatttatactctttttcttctttcacaaattagggttttctc-accgattattttaa-tttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCAC---TAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
                                                                            || | |  || | | |  | |    |    |   |  |  ||   |||||||| |||||||| || ||||||||||| |||||||||||||| || || | ||| ||   |||||| ||| | ||||| || || || ||||||||||   
---------------------------------------------------------------------------gtaagctcctcgcgatctttcacgccaggcctatcttctcttgtgccagGCGACGATGATCTGCATAGACAATTCCGAGTGGATGCGAAATGGGGACTACTATCCGACGAGTAGATTCCAGTCCCAAGCTGATGCTGTCAATCTTATCT---

upper sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ28815 (Selaginella moellendorffii), 3'ss of exon 1
gtatgcctatcctatttacttccacttttgccattctatttcctaatatttatactctttttcttctttcacaaattagggttttctc-accgattattttaa-tttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCAC---TAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
                                                                            || | |  || | | |  | |    |    |   |  |  ||   |||||||| |||||||| || ||||||||||| |||||||||||||| || || | ||| ||   |||||| ||| | |||||||| || || ||||||||||   
---------------------------------------------------------------------------gtaagctcctcgcgatctttcacgccaggcctatcttctcttgtgccagGCGACGATGATCTGCATAGACAATTCCGAGTGGATGCGAAATGGGGACTACTATCCGACGAGTAGATTCCAGTCCCAAGCCGATGCTGTCAATCTTATCT---

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|110724206|gb|EE099841.1|EE099841
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|110718273|gb|EE094914.1|EE094914
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|71865268|gb|DT014323.1|DT014323
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|37185661|gb|CF605014.1|CF605014
EST:     CTCTAAC-ATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: CTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|110723511|gb|EE100909.1|EE100909
EST:     CCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: CCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|37188389|gb|CF607738.1|CF607738
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|110702751|gb|EE079006.1|EE079006
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|110689406|gb|EE065602.1|EE065602
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|110730475|gb|EE107599.1|EE107599
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
EST: gi|71864038|gb|DT013093.1|DT013093
EST:     TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAG                         GCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT
genomic: TTCTTCGCTCTGCTTCTCACCCTCCCAGCTCTCTAACAATGGTGCTCGAGgtatgcctat ... tctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG
                                         tcattct  CT-rich tract
                         attattttaatttgca  TA-rich tract