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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcctctctctctcttaatgcaaccatgcacagatctcctgtgtttttgagaaaaaaactgtccagtgttgactttgctactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG

Basic information

species Zea mays
transcript GRMZM5G876621_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 3'ss of exon 7
ttcctctctctctcttaatgcaaccatgcacagatctcctgtgtttttgagaaaaaaactgtccagtgttgactttgct--actgtctat---tcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
       || | | ||  ||  |   |      |  || | |||||||     ||    | ||  ||||  ||| || |  ||| ||| |   | ||||||||||||| || |||||||||||||||||||| || ||||| ||||| ||||||||||| ||||||||||||||||| |||||||| || |||||||||||||||
-----gactttatttttttgtcatattagtagtagttcttatgtttttactgcaagttatttcttgtgtcaactatgttgaactttctgttggttatggtttcagGATTCTAGCTAATTCAAAGCCTTGTCCTAAGTGCAAGCGGCCCATTGAAAAAAACCAGGGATGCATGCACATTACATGCACACCTCCATGCAAATTTGAG

upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 3'ss of exon 7
---ttcctctctctctcttaatgcaaccatgcacagatctcctgtgtttttgagaaaaaaactgtccagtgttgactttgctactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
     ||  | ||  | |     |  ||||   |     |   |     |   |    | | | |   || |||    |||||   || ||      |||||||||  |||| ||||| ||||| ||||| |||||||||||||| || || ||||| ||||| || ||||| || || ||||| |||||||| |||||||||
gaaaaccattttcggtttcttctcttccatctcctagcattagggtgcatcatgcttcacatttt---gttttgttgctgctaagttccatattgaatttcagGATTTTGGCAAATTCCAAGCCCTGTCCAAAATGCAAACGGCCAATAGAGAAAAACCAGGGTTGTATGCATATTACGTGCACCCCACCATGTAAATTTGAG

upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv00s0207g00090.t01 (Vitis vinifera), 3'ss of exon 7
ttcctctctctctcttaatgcaaccatgcaca-gatctcctgtgtttttgagaaaaaaactgtccagtgttgactttgctactgtctattcatgg------tttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
          ||| ||  ||||    |    | | | | || |   | ||   ||     | |||| |  |  |  |||||   | ||| ||||       |||||||||| |||||||||| ||||||||||| || || || ||||| || |||||||| || || || ||||| ||||||||||| || ||||| |||||||||
------agaatctatttgtgcaggattctttatggtttactataactatgtttaattt-ttttccatttgttgcaatgctaaattttatgcatgtgatgactttcagGATATTGGCTAATTCCAAGCCTTGTCCAAAGTGTAAGCGGCCAATCGAAAAAAACCAAGGTTGTATGCATATCACATGCACACCGCCATGTAAATTTGAG

upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S9_199V6.1 (Physcomitrella patens), 3'ss of exon 8
ttcctctctctctcttaatgcaaccatgcacagatctcctgtgtttttgagaaaaaaactgtccagtgttgactttg----ctactgtctattcatggttt----cagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
        | |   ||   ||    || |     ||  || | || ||    || ||    |||  | || |  |||    |   | | |||  ||  |||    |||||| || || ||    || || ||||||||||| ||| |||| || ||||| ||||| || ||||||||||| || ||||| ||||| ||||||||||||
-----aaatatgcgttcgagctgatattct---gtcgacttttttcttagagaataactcatcctttattcatattgtgttcccttttttatcaatttttttgaacagGATTCTTGCGAACAGCAAACCCTGTCCCAAATGTAAAAGGCCAATCGAAAAGAATCAAGGCTGCATGCACATTACTTGCACACCACCTTGCAAATTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgagaaaaaaactgtccagtgttgactttgctactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
                     tgttgac  putative branch site (score: 3)
      aaaaaaact  TA-rich tract