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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgtttcttgacctatagatattgtggttttgattactctgtaattttatgatttgtttgattttgatgatgaaattggatgaagcagGTAGCGAGAGTAATAGTGCAACGTTGACATTTGATGGTGTTGATAAAATGGGTGAAAGGCTAGCTAATGAG

Basic information

species Arabidopsis thaliana
transcript AT4G25770.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G25770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM5G820727_T01 (Zea mays), 3'ss of exon 3
--gtgcgtgtttcttgacctatagatattgtggttttgattactctgtaattttatgatttgtttgattttgatgatgaaattgga------tgaagcagGTAGCGAGAGTAATAGTGCAACGTTGACATTTGATGGTGTTGATAAAATGGGTGAAAGGCTAGCTAATGAG
   |  |   | | |    ||| |  |||    ||||  ||  ||||||||| |    ||| | |  |    |   | | | |  |      | | ||||| ||  || | ||   ||| ||   |||||||||||||||||||  ||||||||||||| |||| ||||||
ttttttggaatccctttgatattggcattcatcttttctttgttctgtaattcttgcctttttcttgtaaatagatttagactttaccttttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGGGTGAAAGGTTAGCAAATGAG

upper sequence: AT4G25770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM5G820727_T02 (Zea mays), 3'ss of exon 2
--gtgcgtgtttcttgacctatagatattgtggttttgattactctgtaattttatgatttgtttgattttgatgatgaaattgga------tgaagcagGTAGCGAGAGTAATAGTGCAACGTTGACATTTGATGGTGTTGATAAAATGGGTGAAAGGCTAGCTAATGAG
   |  |   | | |    ||| |  |||    ||||  ||  ||||||||| |    ||| | |  |    |   | | | |  |      | | ||||| ||  || | ||   ||| ||   |||||||||||||||||||  ||||||||||||             
ttttttggaatccctttgatattggcattcatcttttctttgttctgtaattcttgcctttttcttgtaaatagatttagactttaccttttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGGGTGAAAG-------------

upper sequence: AT4G25770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G20400.2 (Glycine max), 3'ss of exon 2
--------gtgc-gtgtttcttgacctatagatattgtggtttt--gattactctgtaattttatgatttgtttgattttgatgatgaaattggatgaagcagGTAGCGAGAGTAATAGTGCAACGTTGACATTTGATGGTGTTGATAAAATGGGTGAAAGGCTAGCTAATGAG
         |||   || |    | |  | | | || |  ||||  |  |  | | |||    |    ||  |||  |||| |    || |||  || | |||| || ||  | |||  | |||  ||||| |||||||||||||||| |||||| || ||||||||| | |||
cccttacattgccaagtctaccaatccttcgctcttattattttttgcattgtttataaagaaaaacattaattgcatttgcttgataatttg--tgga-cagGCAGTGAATGCAATTCTTCAAAATTGACGTTTGATGGTGTTGATACAATGGGCGAGAGGCTAGCTGAAGAG

upper sequence: AT4G25770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G25620.1 (Glycine max), 3'ss of exon 3
-----------gtgcgt-gtttcttgacctatagatattgtggttttgattactctgtaattttatgatttgtttgattttgatgatgaaattggatgaagcagGTAGCGAGAGTAATAGTGCAACGTTGACATTTGATGGTGTTGATAAAATGGGTGAAAGGCTAGCTAATGAG
           ||       | ||| |  | ||    || | |  ||| ||| | |  ||    ||   ||  |||  |||| |    || |||  || | |||| || ||  | |||  | |||  ||||| |||||||||||||||| |||||| || ||||||||| | |||
gacattgccaagtctaccaatccttcatttttattattttttgcattgttta-tataaaaaaaaatacattaattgcatttgcttgataatttg--tgga-cagGCAGTGAATGCAATTCTTCAAAATTGACGTTTGATGGTGTTGATACAATGGGAGAGAGGCTAGCTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactctgtaattttatgatttgtttgattttgatgatgaaattggatgaagcagGTAGCGAGAGTAATAGTGCAACGTTGACATTTGATGGTGTTGATAAAATGGGTGAAAGGCTAGCTAATGAG
                            ttttgat  putative branch site (score: 4)
        taattttatgatttgt  TA-rich tract