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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG

Basic information

species Zea mays
transcript GRMZM2G067985_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 3'ss of exon 1
tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
     ||| |  |  ||   | | |     ||   | ||  |  || |     | ||||  || |  || |||  || |   |    |    ||||||  |||||||| |||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||
--atgatttagttgaagaaatgcgtcgtcgtcgagttgtatagcaacaa----tgatcaggcactactacttg--ttaaagtattaactctctgcagctcttctgtagGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG

upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.1 (Oryza sativa), 3'ss of exon 1
--tgcacattca-aatccagt-gtttcttttcaatcacatagtgaactaaaaca-ctctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
  | | |||  |  ||  ||| |      | |     | | | |   || | || |  | ||||  || |  || |||  || |   |    |    ||||||  |||||||| |||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||
agtactcatcaatgatttagttgaagaaatgcgtcgtcgtcgagttgtatagcaacaatgatcaggcactactacttg--ttaaagtattaactctctgcagCTCTTCTGTAGGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG

upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 1
tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGT--AGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
         |||  | |    ||||   ||  |  | |||| || |  |    | |   |       |||   |||   | |   | |   || |     || |    | ||||||| ||||||||||| || ||||| |||||||| |||||||| || |||||||| |||
------aataaacgctgctaatcttcgaaactaagttgtgatctgattcgtgtttacttcatgagcttatccaattcatttcggtttcattttactttttttttagTGAAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAG

upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 1
---------------------------tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
                              |   |||  |  | ||||    | |  |   ||| |  |  |||  |  |  ||        |   || | | ||    |   |          |    ||  |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
atcagtctatcgaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttagGTGTTGCAAAGTGGTTGAGCAGGTCCAAACTA-AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG

upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.4 (Physcomitrella patens), 3'ss of exon 1
-----tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
        |   |||  |  | ||||    | |  |   ||| |  |  |||  |  |  ||        |   || | | ||    |   |          |    ||  |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
ccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagtggttgagcagGTCCAAACTA-AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG

upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.3 (Physcomitrella patens), 3'ss of exon 1
----------------tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
                   |   |||  |  | ||||    | |  |   ||| |  |  |||  |  |  ||        |   || | | ||    |   |          |    ||  |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
gaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagTGGTTGAGCAGGTCCAAACTA-AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
                   tgatatttgattttat  TA-rich tract