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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcgtgatattgcttctagttgagctacaaatgacatctagtttgtatatatctttcgagtcttggtcatctaacttattgttttggtgtttgctattcagGTTAGCGAGGGAAGCTGGCCTTGAATTTGTGGAAATTCAAAGTTTAACAGATTTTTATGATGATAACAG

Basic information

species Arabidopsis thaliana
transcript AT3G52210.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G171410_T05 (Zea mays), 3'ss of exon 6
-------------------tcgtgatattgcttctagttgagctacaa--atgacatctagtttgtatatatctttcgagtcttggtcatctaacttattgttttggtgtttgctatt----cagGTTAGCGAGGGAAGCTGGCCTTGAATTTGTGGAAATTCAAAGTTTAACAGATTTTTATGATGATAACAG
                   ||   || |||       |   ||||  |  || || |  |   | | || ||      |     ||| ||   | || |     || |   |  | ||    ||| ||| | ||||||||||| ||||||| |||||| || || | |||||| || |||||||||||||||||
gttcttctctcatttactttcaacattttgtcgtatatcccgctatcattataacctagaacctctgtaaattcaagcaagtagggtgatgagagttttcacaatgctaggttgtgttgaaacagATTATCAAGGGAAGCTGGACTTGAATATGTGGAGATCCAGAATTTAACCGAGTTTTATGATGATAACAG

upper sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G13240.2 (Glycine max), 3'ss of exon 7
tcgtgatattgcttctagttgagctacaaatgacatctagtttgtatatatctttcgagtcttggtcatctaac-ttattgttttggtgtt--tgctattcagGTTAGCGAGGGAAGCTGGCCTTGAATTTGTGGAAATTCAAAGTTTAACAGATTTTTATGATGATAACAG-------------------------------
 | | || |   |  | | |    | |  ||  | || |  || |  || | ||   | |||       | ||   || ||| || |  ||  |   | ||||||| || ||||||||||| ||||| |  ||||| ||||||| ||| || || ||||||||||| |||||                               
-cttaatgtacttgtttggttcattcctcatatcttcaa--ttatgaattttttaaaaatctaacctgacaaaaactactgtgtttgctttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAGGTTAGTTTTGCATTCTCTGTAGGGCACTGAT

upper sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G41590.1 (Glycine max), 3'ss of exon 7
---tcgtgatattgcttctagttgagctacaaatgacatctagtttgtatatatctttcgagtcttggtcatctaacttattgttttggtgtttgctattcagGTTAGCGAGGGAAGCTGGCCTTGAATTTGTGGAAATTCAAAGTTTAACAGATTTTTATGATGATAACAG
    | | || | | |  | | |    | || ||  | || | | ||  | ||       |    |     |  ||   | |||||  ||  ||   | ||||||| || ||||||||||| ||||| |  ||||| ||||||| ||| || || ||||||||||| |||||
ataacttcatgtagttatttggttcattccacatatcttcaattatgactttaaaaaaaaaaaactaact-tgaaaaaaactgttt--gttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG

upper sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G13240.1 (Glycine max), 3'ss of exon 7
tcgtgatattgcttctagttgagctacaaatgacatctagtttgtatatatctttcgagtcttgg-tcatctaacttattgttttgg--tgtttgctattcagGTTAGCGAGGGAAGCTGGCCTTGAATTTGTGGAAATTCAAAGTTTAACAGATTTTTATGATGATAACAG
 | | || |   |  | | |    | |  ||  | || |  || |  || | ||   | |||    | |   ||  || ||| || |  |  ||   | ||||||| || ||||||||||| ||||| |  ||||| ||||||| ||| || || ||||||||||| |||||
-cttaatgtacttgtttggttcattcctcatatcttcaa--ttatgaattttttaaaaatctaacctgacaaaaactactgtgtttgctttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatctttcgagtcttggtcatctaacttattgttttggtgtttgctattcagGTTAGCGAGGGAAGCTGGCCTTGAATTTGTGGAAATTCAAAGTTTAACAGATTTTTATGATGATAACAG
                      atctaac  putative branch site (score: 2)
                         taacttattgtttt  TA-rich tract