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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcttaactttcggcctgctgtctgatccgtctagacctacttttaatagttatgagtttcgtctggtgcttatgttttgtgtttcatcatatatgccagATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAG

Basic information

species Arabidopsis thaliana
transcript AT2G17800.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM5G803949_T02 (Zea mays), 3'ss of exon 4
tgcttaactttcggcctgctgtctg-atccgtctagacctacttttaatagttatgagttt--cgtctggtgcttatgt-tttgtgtttcatcatata-tgccagATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAG
     ||||   ||| |    | |  |     | |  ||||   | ||   | | |    |  |  |   | ||||| | ||     | ||   | || || |||||||||| |||||||| ||||||||  | ||||| ||||| ||||| || || ||||||||||||
-----aactagtggcataacttgtacacaaacccacgcctagagtaaagcctcaggttgctagcagcacatccttatatcttcacaatgcacattttactgacagATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G36880.1 (Glycine max), 3'ss of exon 5
tgcttaactttcggcctgctgtctg-atccgtctagacc-tacttttaatagttatgagtt-tcgtctggtgcttat-gttttgtgtttcatcatatatgccagATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAG
     ||   | |   |  | |||  ||  ||  | |   || |  |  |  | |  |    | ||| | | |||||  ||| ||| ||  | ||    |  ||| ||||||||||| || ||||||| ||||||||| ||||| || ||||| ||||| || ||||||
--acaaatggttgttttagtttctccatttgtgcatattatattgatggttttcacaaccaatagtccgttccttattatttcgtgatttgtgatga--gatagACCTTCGGGATGATAAGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA16G23340.1 (Glycine max), 3'ss of exon 4
---tgcttaa----ctttcggcctgctgtctgatccgtctagacctacttttaatagttatgagtttcgtctggtgcttatgttttgtgtttcatcatatatgccagATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAG
   || | ||     | | ||||| ||       |  ||   |  |  | ||   | ||| |||||     |  |    || |||||  ||| |    ||  | |||| ||||| ||||| || ||||||||||| ||||| ||||| |||||||| ||||| || | ||||
ttttgttaaaaatattcttggcct-ctacacatactatcaccaattgttcttt-caattaagagtt--agttatttaccattttttgaatttgaa---atgagacagACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 3'ss of exon 5
--tgcttaactttcgg--cctgctgtctgatccgtctagacctactttta--atagttatgagtttcgtctggtgcttatgttttgtgtttcatcatatatgccagATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAG
     |||      ||    ||| ||  ||   |  ||    |  ||||   ||| |||  |  ||  | | || || || ||   ||||     |  |  || |||||||||||| ||||| ||||||||||| ||||| ||||| ||||| || ||  || | ||||||
ctaaattagtagaaggaatttgcagtaggagtaggttatttatggttttgtgataattaacaaattttttttgt-ctgattttcaatgtt-----aattgagctagATCTTCGGGAAGACAAGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatagttatgagtttcgtctggtgcttatgttttgtgtttcatcatatatgccagATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAG
 ttttaat  putative branch site (score: 3)
                         ttatgtttt  TA-rich tract