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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaagttttgttttgtcaagttaggttttatatctgtctctttgcaaatagtaaacatgcagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA

Basic information

species Arabidopsis thaliana
transcript AT1G08860.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 14
------------------gtacaagttttgttttgtcaagt---taggttttatatctgtct-------ctttgcaaatagtaaacatg--cagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
                  || |||||||| ||   |  |     |   || | ||   |  |       |||||    |||| |  |||   | ||| |  || ||||  ||  | ||| |||| |||||||||||||| || ||||| |||||||||||||||||  |||||||||| || || || |||||||| ||||||| |||  | || |
gtcctactactcatccttgtccaagtttttttccttagaccccattaattatttagtagcatgaaaatgctttgttgttagtgagaatgaataatgaatatac-ttgtggat--tgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA

upper sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 14
---------------gtacaagttttgttttgtcaagttaggttttatatctgtctctttgcaaatagtaaacatgcagtgact-tgaccttgtaaat------atttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
               || |||||||| |||  | | |     ||   ||| |       || ||||  |        || ||   |||   | || |       ||| ||| |||| |||||||||||||| || | ||| |||||||||||||||||  |||||||| | || || || |||||||||||||||| |||  | || |
gtcctactaatccttgtccaagtttt-tttccttaggccccattaattatttagtatcatgaaaatgctttgttgttagggagaatgaatatatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA

upper sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA03G40220.1 (Glycine max), 3'ss of exon 14
---------------------gtacaagttttg---ttttgtcaagttaggttttatatctgtctctttgcaaatagtaaacatgcagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
                     || ||||||||    ||  |||   |||  |    ||  ||      ||  || | | || || |  | |||     |  |     || ||| |||| |||||||||||||| || |||||||||||| | || |||||  | |||||||| || || || |||||| ||||||||| |||  | || |
gtttaattactattcatccttgtccaagtttttaccttaggtcccattaattaaattacttggtagcatgagaa-aatgaatatac--tcactccggttgcttgcacttgcagGTGCTGGATGCTGATAATGGGCGTCGGTTAGAGAGTCCCACCGGTCGCGTGGCTACACGAGATATAGTGCAATTTATCCCTATGAGAGAAGTACAGA

upper sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 12
-------------------------------------------------gtacaagttttgttttgtcaagttaggtttta--------tatctgtctctt-tgcaaatagtaaacatgcagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
                                                 |    |||    |||    |  | | | ||||        |||  || || | |   || |||         |||   |||   |     | |  ||||| |||||||||||| ||||||| ||| ||||||||||||| || ||  | || || || || || || || ||||| || ||||  ||  | | | 
gtgtacccttgttttcttaatttagcattcaatacttcaattaatttatgccttagtggcatttcagtacttaatgctttaatcggtactatgggtttcatgtctcaacagtgtttg-attgtgttctgattcttattgtttggcagATCCTTGATGCTGATGATGGTCGTCGGCTAGAGAGTTCTACAGGACGTGTGGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG

upper sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv14s0030g00550.t01 (Vitis vinifera), 3'ss of exon 11
-------------------------------------------------------------gtacaagttttgttttgtcaagttaggttttatatctgtctctttgcaaatagtaaacatgcagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
                                                              | ||    ||  |   | ||  | |||  |||   | ||   |  |||  | |         |||   |||   |     | |  ||||| |||||||||||||| ||| | ||||||||||||||||| || ||  |||| || || || || || || ||||| || ||||  ||  | | | 
gtgtacccttgttttcatattttagcattcaatacttcagttaatttatgcttttgtggcatttcagtacttaatgctttaa--tgggtactatgggtttcatgtctcaa-caatgtttgaat-gtgttctgattcttattgtttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG

upper sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv14s0030g00570.t01 (Vitis vinifera), 3'ss of exon 15
-------------------------------------------------gtacaagttttgttttgtcaagttaggttttatatctgt-ctct---ttgcaaatagtaaacatgcagtgacttgaccttgtaaatattt-----cagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
                                                 |     ||    |||    |  | | | |||| ||  || || |   || ||  |   ||  |||     |  ||  ||  |   |||||     ||||| |||||||||||||| ||| | ||||||||||||||||| || ||  |||| || || || || || || ||||| || ||||  ||  | | | 
gtgtacccttgttttcataatttagcattcaatacttcagttaatttatgcttttgtggcatttcagtacttaatgcttta-atgggtactatgggtttcatgtctcaacaatgtttgaatgtgttctgattcttattttttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG

upper sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv12s0121g00080.t01 (Vitis vinifera), 3'ss of exon 14
-------------------------------------------------------gtacaagttttgt-tttgtcaagttaggttttatatctgtctctttgcaaatagtaaacatgca-gtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
                                                        |   | ||  ||  ||      |||     || |   | ||   ||     |  ||   |  | |||   |||   |     | |  ||||| |||||||||||||| ||| | ||||||||||||||||| || ||  |||| || || || || || || ||||| || ||||  ||  | | | 
gtgtacccttgttttcataatttagcattcaatacttcaattaatttatgctttattggcatttcagtacttaatgctttaatgggtacaatgggcttcatgtct-caacaatgttatatgtgttctgattcttattgtttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgtctctttgcaaatagtaaacatgcagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
                                acttgac  putative branch site (score: 4)
                                        ttgtaaatatttca  TA-rich tract