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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttgtgttaatttttcgcgctgctgtaaatattagaagtgcataaatcatggaaccatcacgattattgaactcttgagcagGTTTCTCCAAAGTATACCCTCATCACTCCTTCTCAATGCAAGTCACTGTGGAAGCAGTTCAAAGCAGAAACTGAGTTCGCCATTACACAAGCGGTTTCCA

Basic information

species Oryza sativa
transcript LOC_Os12g41170.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G390374_T01 (Zea mays), 3'ss of exon 18
gtaagcttgtgttaattt-ttcgcgctgctgtaaatattagaagtgcataaat-catggaac-catcacgattat-tgaactcttgagcagGTTTCTCCAAAGTATACCCTCATCACTCCTTCTCAATGCAAGTCACTGTGGAAGCAGTTCAAAGCAGAAACTGAGTTCGCCATTACACAAGCGGTTTCCA
||||  |||||||  | | |||  ||    | ||| | | || |||      | |||| ||   | ||| | | | ||||   |  | ||| || ||||| || ||||  | || ||||||||||| ||||||| |||||||||||| |||||| |||||||||||||| ||||||||||||| || ||||
gtaattttgtgttggtctgttcttgcacaagcaaacaatggaggtgtgcctgtgcatgtaatgtaacacaactttatgaaacttgaaacagATTCCTCCAGAGCATACAATGATTACTCCTTCTCAGTGCAAGTTACTGTGGAAGCAATTCAAATCAGAAACTGAGTTCACCATTACACAAGCAGTATCCA

upper sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G052619_T01 (Zea mays), 3'ss of exon 15
gtaagcttgtgttaattt-ttcgcgctgctgtaaatattagaagtgcataaat-catggaaccatcacgattattgaactcttgagcagGTTTCTCCAAAGTATACCCTCATCACTCCTTCTCAATGCAAGTCACTGTGGAAGCAGTTCAAAGCAGAAACTGAGTTCGCCATTACACAAGCGGTTTCCA
||||  |||||||  | | |||  ||    | ||| | | |||| | |    | |||| ||| | |||  ||||  |||||   | ||| || |||||||| ||||  | || || || ||||| ||||||||||||||||| || || |||||||||||||||||| | ||||||||||| || ||||
gtaactttgtgttggtctgttcttgcacaagcaaacaatggaagcgtaggtgtgcatgtaac-accact-ttatgaaactcg-aaacagATTGCTCCAAAGCATACAATGATTACCCCGTCTCAGTGCAAGTCACTGTGGAAACAATTTAAAGCAGAAACTGAGTTCACGATTACACAAGCAGTATCCA

upper sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G407913_T02 (Zea mays), 3'ss of exon 5
gtaagcttgtgttaattt-ttcgcgctgctgtaaatattagaagtgcataaat-catggaaccatcacgattattgaactcttgagcagGTTTCTCCAAAGTATACCCTCATCACTCCTTCTCAATGCAAGTCACTGTGGAAGCAGTTCAAAGCAGAAACTGAGTTCGCCATTACACAAGCGGTTTCCA--
||||  |||||||  | | |||  ||    | ||| | | |||| | |    | |||| ||| | |||  |||| ||||||   | ||| || |||| ||| ||||  | || || |  ||||| ||||||||||||||||| || || |||||||||||||||||| | |||||  |||| || ||||  
gtaactttgtgttggtctgttcttgcacaagcaaacaatggaagcgtaggtgtgcatgtaac-accact-ttatggaactcg-aaacagATTCCTCCGAAGCATACAATGATTACCCTGTCTCAGTGCAAGTCACTGTGGAAACAATTTAAAGCAGAAACTGAGTTCACGATTAC--AAGCAGTATCCACA

upper sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 18
lower sequence: AC193355.3_FGT005 (Zea mays), 3'ss of exon 1
gtaagcttgtgttaattt-ttcgcgctgctgtaaatattagaagtgcataaat-catggaaccatcacgattattgaactcttgagcagGTTTCTCCAAAGTATACCCTCATCACTCCTTCTCAATGCAAGTCACTGTGGAAGCAGTTCAAAGCAGAAACTGAGTTCGCCATTACACAAGCGGTTTCCA--
||||  |||||||  | | |||  ||    | ||| | | |||| | |    | |||| ||| | |||  |||| ||||||   | ||| || |||||||| ||||  | || || || ||||| ||||||||||||||||| || || |||||||||||||||||| | |||||  |||| || ||||  
gtaactttgtgttggtctgttcttgcacaagcaaacaatggaagagtaggtgtgcatgtaac-accact-ttatggaactcg-aaacagATTCCTCCAAAGCATACAATGATTACCCCGTCTCAGTGCAAGTCACTGTGGAAACAATTTAAAGCAGAAACTGAGTTCACGATTAC--AAGCAGTATCCACA

upper sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G438694_T01 (Zea mays), 3'ss of exon 4
gtaagcttgtgttaattt-ttcgcgctgctgtaaatattagaagtgcataaat-catggaaccatcacgattattgaactcttgagcagGTTTCTCCAAAGTATACCCTCATCACTCCTTCTCAATGCAAGTCACTGTGGAAGCAGTTCAAAGCAGAAACTGAGTTCGCCATTACACAAGCGGTTTCCA
||||  |||||||  | | |||  ||    | ||| | | ||||  ||    | |||| ||| | |||  ||||  |||||   | ||| || |||||||| ||||  | || || || | ||| ||||||||||| ||||| || || |||| ||||||||||||| | ||||||||||| || ||||
gtaactttgtgttggtctgttcttgcacaagcaaacaatggaagcacaggtgtgcatgtaac-accact-ttatgaaactcg-aaacagATTCCTCCAAAGCATACAATGATTACCCCGTATCAGTGCAAGTCACTATGGAAACAATTTAAAGTAGAAACTGAGTTCACGATTACACAAGCAGTATCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatattagaagtgcataaatcatggaaccatcacgattattgaactcttgagcagGTTTCTCCAAAGTATACCCTCATCACTCCTTCTCAATGCAAGTCACTGTGGAAGCAGTTCAAAGCAGAAACTGAGTTCGCCATTACACAAGCGGTTTCCA
                                            ctctt  CT-rich tract
              ataaatcat  TA-rich tract