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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaatccagtgctccttttcaatcacatattgaactaaaacactttcatcattgactcatttgattctatccatatgcgccacctgcagcagttctgtagAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG

Basic information

species Zea mays
transcript GRMZM2G104017_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104017_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 3'ss of exon 1
caaatccagtgctccttttcaatcacatattgaactaaaacactttcatcatt-gactcatttgattctatccatatgcgccacctgcagcagttctgtag-
   ||  |||        |   ||     | ||  |  |   |    || ||  | | |   |  || |     |||   |   |||||||  |||||||| |||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||
atgatttagttgaagaaatgcgtcgt-cgtcgagttgtatagcaacaatgatcaggcactactacttgttaaagtattaactctctgcagctcttctgtagGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG

upper sequence: GRMZM2G104017_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.1 (Oryza sativa), 3'ss of exon 1
----caaatccagtgctccttttcaatcacatattgaactaaaacacttt--catcattgact---catt--tgattctatccatatgcgccacctgcagcagttctgtag-
    |  ||| |    |   ||  |   |    | |   |  |    | |  || || |||     || |  |  || |     |||   |   |||||||  |||||||| |||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||
agtactcatcaatgatttagttgaagaaatgcgtcgtcgtcgagttgtatagcaacaatgatcaggcactactacttgttaaagtattaactctctgcagCTCTTCTGTAGGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG

upper sequence: GRMZM2G104017_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 1
--caaatccagtgctccttttcaatcacatattgaactaaaacactttca--tcattgactcatttgattctatccatatgcgccacctgcagcagttctgtagAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
   |||  | |     |||   ||  |  |  ||| || |  |   || |  ||||   || ||   ||||  | |   | |              ||    | ||||||| ||||||||||| || ||||| |||||||| |||||||| || |||||||| |||
aataaacgctgctaatcttcgaaactaagttgtgatctgattcgtgtttacttcatgagcttatccaattcatttcggtttcattttactttttttttagTGAAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAG

upper sequence: GRMZM2G104017_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------caaatccagtgctccttttcaatcacatattgaactaaaacactttcatcat-tgactcatttgattctatccatatgcgccacctgcagcagttctgtagAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
                                   ||  |  | || ||   | |  |   ||| |  |  |||  |     ||  | |  |    ||   | |  | |  ||    | | |   ||       |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
atcagtctatcgaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttagGTGTTGCAAAGTGGTTGAGCAGGTCCAAACTA--AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG

upper sequence: GRMZM2G104017_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.4 (Physcomitrella patens), 3'ss of exon 1
-------------caaatccagtgctccttttcaatcacatattgaactaaaacactttcatcat-tgactcatttgattctatccatatgcgccacctgcagcagttctgtagAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
             ||  |  | || ||   | |  |   ||| |  |  |||  |     ||  | |  |    ||   | |  | |  ||    | | |   ||       |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
ccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagtggttgagcagGTCCAAACTA--AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG

upper sequence: GRMZM2G104017_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.3 (Physcomitrella patens), 3'ss of exon 1
------------------------caaatccagtgctccttttcaatcacatattgaactaaaacactttcatcat-tgactcatttgattctatccatatgcgccacctgcagcagttctgtagAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
                        ||  |  | || ||   | |  |   ||| |  |  |||  |     ||  | |  |    ||   | |  | |  ||    | | |   ||       |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
gaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagTGGTTGAGCAGGTCCAAACTA--AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatcattgactcatttgattctatccatatgcgccacctgcagcagttctgtagAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
             atttgatt  TA-rich tract