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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaacacctgcctggatccgtccggtttcattttgccacgtcctttttggctggtgagatttatgcgtgctgcgtttgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTC

Basic information

species Zea mays
transcript GRMZM2G072315_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G072315_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g54890.2 (Oryza sativa), 3'ss of exon 1
gtaagcaacacctgcctggat--ccgtccggtttcattttgccacgtcctttttgg----ctggtgagatttatgcgtgctgcgtttgtttt--gcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTC
||||||  |   | | |||||  |  |||| || |   ||| ||  ||  |||  |    ||| |  |||||  |      | | |   |    |||| ||||| |||||||||||||||||||| |||||||| ||||| ||||| ||| ||||||||||||| |||||||||||||||| |||||||||| |||||
gtaagctgcggatccatggatttctctccgtttcccccttgtcatttcgatttctgatttctgttctgattttgggacctcgtggtgaatccccgcagCATGATCCCGCACAAGACCAAGAGGGGAGAGGCGGCGCTGGCAAGGCTGAAGGCGTACGAGGGCGTGCCGCCGCCGTACGACAGGACCAAGCGCATGGTC

upper sequence: GRMZM2G072315_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g54860.1 (Oryza sativa), 3'ss of exon 1
-----------------gtaagcaacacctgcc--tggat--ccgtccggtttcattttgccacgtcctttttgg--ctggtgagatttatgcg-tgctgcgtttgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTC
                   ||||    |    |  |||||  |  |||| ||||   ||| ||  ||  ||   |  ||| |      |  |||  || | |  |    ||||| ||||| |||||||||||||||||||| |||||||| ||||| ||||| ||| ||||||||| |||  ||||||||||||||| |||||||||| |||||
gtaagctaatcaaaccccgaagctgtgcggatcaatggatttctctccgctttccccttgtcatttcgattcctgttctgattttgcgtcggcggcgcggtgaatcccctgcagCATGATCCCGCACAAGACCAAGAGGGGAGAGGCGGCGCTGGCAAGGCTGAAGGCGTACGAGGTCGTGACGCCGCCGTACGACAGGACCAAGCGCATGGTC

upper sequence: GRMZM2G072315_T03 (Zea mays), 3'ss of exon 1
lower sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 2
-gtaagcaacacctgcctggatccgtccggtttcattttgccacgtcctttttg-gctggtgagatttatgcgtgctg--------cgtttgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTC
 |||       ||||  |          ||    |   |    | |  ||||    |    || |  |  | || |||        ||    | |||||| ||||||||||||||||||||||| || |  || || || | | | || ||| | | ||| || || ||  | || ||||| ||||  ||| |  |||| 
agtattagtttcctgatttagagtaagaggcagaacaatctatctttattttcataccaaagataccttcgggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211074304|gb|FK951901.1|FK951901
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211068817|gb|FK951859.1|FK951859
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGT                         GATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|89759041|gb|DY687990.1|DY687990
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211077038|gb|FK951906.1|FK951906
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211074297|gb|FK951894.1|FK951894
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|14529422|gb|BI096555.1|BI096555
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGC--G-G-                         GATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|9566387|gb|BE475896.1|BE475896
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211077035|gb|FK951903.1|FK951903
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211077047|gb|FK951915.1|FK951915
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|9731552|gb|BE510304.1|BE510304
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211518733|gb|FK951840.1|FK951840
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211077041|gb|FK951909.1|FK951909
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211074298|gb|FK951895.1|FK951895
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211071560|gb|FK951881.1|FK951881
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211071564|gb|FK951885.1|FK951885
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|211068820|gb|FK951862.1|FK951862
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|91048018|gb|EB158436.1|EB158436
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGC--G-G-                         GATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
EST: gi|9461298|gb|BE453663.1|BE453663
EST:     TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGG---                         -ATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA
genomic: TCCACTTCCGCGCCCCGTCCAAGATCCTGTGGCGCACCATCCGCGGGTGTgtaagcaaca ... tgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgccacgtcctttttggctggtgagatttatgcgtgctgcgtttgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTC
                                           tttgtttt  CT-rich tract
                         agatttat  TA-rich tract