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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcctcttcagttactgagttctgcaattgttttatagggattattttatattagctgctttactctttttctgaaccattaattctgtgcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGGGCAAGCCGAGTACACTTGCCCTAATT

Basic information

species Arabidopsis thaliana
transcript AT3G12980.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G470556_T01 (Zea mays), 3'ss of exon 6
gtatgcctcttcagtt--actgagttctgcaattgttttatagggattattttatattagctgctttactctttttctgaaccattaattctgtgcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGGG---CAAGCCGAGTACACTTGCCCTAATT
|||||  | | |||||  | |||       ||  | |  | ||    || | | | |     |   ||  | |||||  || |||  ||||||  |||||||| |||||||| |||||||||   ||||| ||||||||||||||| | || || ||  | |||||   |||    ||||| || || ||||||||     
gtatgttt-tgcagttccattgatacacataaaagctcaaaagtttctaatatttttctttggtgctaaacattttc-aaatcatgcattctg--cagTGGGTTCAATGTGACAAATGTCAATGCTGGCAACATCAAATTTGTGCTCTATTTAATGGAAGAAGGAACGGTGGAGGACAAGCTGAATATACTTGCCCCC---

upper sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G139977_T01 (Zea mays), 3'ss of exon 6
-------gtatgcctcttcagttactgagttctgcaattgttttatagggattattttatattagctgctttactctttttctgaaccattaattctgtgcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGGG---CAAGCCGAGTACACTTGCCCTAATT
        |     ||    | ||    |||    ||  | |  | ||    |  | | | |    ||   ||  | |||||  |||||   ||||||  |||||||| |||||||| |||||| ||   ||||| ||||||||||||||||| || || ||  | |||||  ||||    ||||| || || |||||||| |   
gtaagtactgcagttccattgatatgtggtttcataaaagctcaagagtttctgatatttttcttttgtgctaaacattttc-aaaccacacattctg--cagTGGGTTCAATGTGACAAATGTGAATGTTGGCAACATCAAATTTGTGCTTTATTTAATGGAAGAAGGAACGATGGAGGACAAGCTGAATATACTTGCCCCA---

upper sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 7
gtatgcctcttcagttactgagttctgcaattgttttatagggattattttatattagctgctttactctttttctgaaccattaattctgtgcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGG---GCAAGCCGAGTACACTTGCCCTAATT
               |  | |||    ||  ||| | ||  || |   || |  | || |  |||  | | ||    | | |||   | |||||||||||| ||||||||||||||| |||||||||| ||||||||||||||||| || || ||| | || ||| ||||    ||||| || || ||||||||||   
------------gtatgttaagtgtgccatatgtgtcatttggttg--ttcagctaagtttttttgttttattaaccatctattctctgtgtgcagTGGGTTCAATGTGATAAATGTGAAGCATGGCAACATCAAATTTGTGCTTTATTTAATGGCAGAAGAAATGATGGTGGACAAGCTGAATATACTTGCCCTA---

upper sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 9
gtatgcctcttcagttactgagttctgcaattgttttatagggattattttatattagctgctttactctttttctgaaccattaattctgtgcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGG---GCAAGCCGAGTACACTTGCCCTAATT
               |  | |||    ||  |||  | | |   ||   ||| |  || |  |||  | | ||    | | |||  || |||||||||||| ||||||||||| ||| |||||||||| |||||||||||||| || || || ||  | || ||| ||||    ||||| || || ||||||||||   
------------gtatgttaagtgtgccatgtgtcattttgttgttcagtta-acaagtttttttgttttattaaccatctattctttgtgtgcagTGGGTTCAATGTGATAAGTGTGAAGCATGGCAACATCAAATTTGTGCCTTATTTAATGGTAGAAGAAATGATGGTGGACAAGCTGAATATACTTGCCCTA---

upper sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 7
gtatgcctcttcagttactgagttctgcaattgttttatagggattattttatattagctgctttactctttttctgaaccattaattctgtgcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGG---GCAAGCCGAGTACACTTGCCCTAATT
||  |  || |   ||| |  |||     |||| ||   ||   ||| ||| | |||    |  |   |||| |||| |            |||||||||| ||||||||||||||| | |||||||| |||||||||||||| || || || || || || ||| ||||    ||||| || |||||||||||||   
gtgcgtatcatgtcttattttgttt----attgattggcagt--ttactttgttttaataaccatctactttatctgca------------tgcagTGGGTTCAATGTGATAAATGTGAGGCATGGCAACATCAAATTTGTGCCTTATTTAATGGTCGAAGAAATGATGGTGGACAAGCTGATTACACTTGCCCTA---

upper sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
gtatgcctcttcagttactgagttctgcaattgtt-ttatag-ggattattttat-attagctgctttactctttttctgaaccattaattctgt---gcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGG---GCAAGCCGAGTACACTTGCCCTAATT
|||||  |  |   || ||   ||  | |  |||  ||||   |||||||| | | |  |   ||| |    | | | |||||  ||  |||| |   ||||||||| |||||||| |||||| |||| ||||| |||||||||||||| |||||||| || || |||||| ||||   ||| || || || ||||||||||   
gtatgttttattcatttct---tttagtatctgtcattatgttggattattgtctgagcaatcgctct----tatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA---


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggattattttatattagctgctttactctttttctgaaccattaattctgtgcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGGGCAAGCCGAGTACACTTGCCCTAATT
                                       cattaat  putative branch site (score: 3)
     attttatattagct  TA-rich tract