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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtacttgctgctactgcatcgacgcctcatagctctaaacctgcaccttttttccccttgtgcttctactagtagtacttctcggctggaaaccatgccctaaccaaaaaaaggacggaactttgcgttggatttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA

Basic information

species Zea mays
transcript GRMZM2G159500_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159500_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g21030.1 (Oryza sativa), 3'ss of exon 1
gttagtacttgctgctactgcatcgacgcctcatagctctaaacctgcaccttttttccccttgtgcttctactagtagtacttctcggctggaaaccat-gccctaaccaaaaaaaggacggaactttgcgttggatttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA
                                     | |   |||| |    || || |||| |  |||| |   |  | | |     |   ||| | | |  || ||  |  |     ||      ||  |||  |||   ||| || ||| ||||||||||||||||||||||||||||||||||||||||| |||||||||||||| || ||| |||| ||||| || ||||||| ||||||
------------------------------------gtttgttcctgaa----ttctctccttttttttctccccttgattcgttcgtacgataaatctttgggcttacggatgagtttgcg------tggtttgatttttggcagCCATGGCGAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGACCGCAAGTACCCGACCGGGACGAGGACGAACCGGGCGACGGAGAGCGGCTA

upper sequence: GRMZM2G159500_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S327_64V6.1 (Physcomitrella patens), 3'ss of exon 1
gttagtacttgctgctactgcatcgacgcctcatagctctaaacctgcaccttttttccccttgtgcttctactagtagtacttctcggctggaaaccatgccctaaccaaaaaaaggacggaactttgcgttggat--ttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA
                    ||   || ||  ||   || |           | |       ||| || | | |      |      |    || |    | || || ||   |||  |     ||  | |    ||  |  | |||  |  || ||| | |||||||||||||||||||||||| |||    |||||||||||| |||||||| | ||| || ||  | ||||| || |  || ||
----------------gtgacacaaactcccaatccttccagtatcatctggtgtagtgtgctgtcctccgaatttggtgatcatgtgaactgagatg--gaccgaatcattgaaattagtttcctcggtgggaaatgatcttgcagAGAAAGCGAAGTTAGGGGAGAAGGAGTGGTACTTCTTCAGCCTGCGGGATCGCAAGTATCCGACGGGAATGCGAACAAATAGAGCCACCGAAAAGGGTTA

upper sequence: GRMZM2G159500_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
gttagtacttgctgctactgcatcgacgcctcatagctctaaacctgcaccttttttccccttgtgcttctactagtagtacttctcggctggaaaccatgccctaaccaaaaaaaggacggaactttgcgttggatttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA
                                            ||   | |  |||| | |  | |||       |  ||  | |    ||||  || ||  |  || |  || |     |   || ||  | | |     ||| || |||||||||||| |||||||| ||||||||||||   |    ||| || ||||| || ||||| | ||| || ||||| ||||| ||| |||| ||
------------------------------------------ttctatgcatcgtttctcataat-cttggctagatgctatctatttcttggagtccgtgagc--actactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA

upper sequence: GRMZM2G159500_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ37734 (Selaginella moellendorffii), 3'ss of exon 1
gttagtacttgctgctactgcatcgacgcctcatagctctaaacctgcaccttttttccccttgtgcttctactagtagtacttctcggctggaaaccatgccctaaccaaaaaaaggacggaactttgcgttggatttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTC-TGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA
                                            ||   | |  |||| | |  | |||       |  ||  | |    ||||  || ||  |  || |  || |     |   || ||  | | |     ||| || |||||||||||| |||||||| ||||||||||||  ||  | || | || ||||| || ||||| | ||| || ||||| ||||| ||| |||| ||
------------------------------------------ttctatgcatcgtttctcataat-cttggctagatgctatctatttcttggagtccgtgagc--actactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGAGAGAAGGAATGGTACTTCTTCACGCTGCGAG-ACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaaaccatgccctaaccaaaaaaaggacggaactttgcgttggatttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA
           ccctaac  putative branch site (score: 2)
                                              tttctcc  putative PPT
                   aaaaaaa  TA-rich tract