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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAATGTCTGTCTGAACATTCTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagctatcttgtttccccaattgttgaaataatacatttagaaattgggaagatgaaagaatagtgtttgcatttttgcatgcattgttgtcat...

Basic information

species Zea mays
transcript GRMZM2G115939_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G115939_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os10g11260.3 (Oryza sativa), 5'ss of exon 5
----------GGCAATGTCTGTCTGAACATTCTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagctatcttgtttccccaattgttgaaataatacatttagaaattgggaagatgaaagaatagtgtttgcatttttgcatgcattgttgtcat--
          || ||||| || ||||||||| ||||||||||||||||||||||||||||||||||||| |||||||||||||| || ||||||||||||||||||||| |  ||||   ||| | |  ||| ||| ||  |||| | || | |  | |  ||| ||   | |   ||| ||| ||     ||||   |   
TGATTTGGAAGGAAATGTATGCCTGAACATTTTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCCTTAACCTTCTTTTTACGgtatttcagtttccttgac-ccctattgattgcaattatgtatttcggaaatagataaaaaaaacaaatatctaatcatgtttaca-atgctgttcaaacct

upper sequence: GRMZM2G115939_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT2G18600.1 (Arabidopsis thaliana), 5'ss of exon 5
----------GGCAATGTCTGTCTGAACATTCTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagctatcttgtttccccaat----tgttgaaataatacatttagaaattgggaagatgaaagaatagtgtttgcatttttgcatgcattgttgtcat
          || || ||||||||||||||  |||||||||| ||||| || ||||||||||| ||||| ||||| || || ||    | ||| || ||||||    || | ||      |    ||      ||||  | ||  || | |    |   ||  |||| || | || ||    | ||||    ||| |       
CGATCTAGAAGGAAACGTCTGTCTGAACATCTTGCGTGAAGACTGGAAACCGGTTCTCAACATAAACACAGTTATCTACGGTCTTTTCCATCTCTTCACGgtaaca-agttctccctgaccgatgatactccattgatgttat-tatcttgggccttctaatctgaa-gacttgttttgctttgtttgttcacatag-------

upper sequence: GRMZM2G115939_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT4G36800.1 (Arabidopsis thaliana), 5'ss of exon 5
----------GGCAATGTCTGTCTGAACATTCTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagctatcttgtttccccaattgttgaaataatacatttagaaattgggaagatgaaagaatagtgtttgcatttttgcatgcattgttgtcat
          || || || || ||||||||  |||||||||||||||| |||||||| ||||| ||||| ||||| || || ||    | ||| || |||||| || | |      |||    |||     |   |  |   ||      ||    |  |||  || |  | ||  ||                      
CGATTTGGAAGGAAACGTTTGCCTGAACATCTTGCGTGAAGATTGGAAACCTGTTCTTAACATTAACACAGTTATCTACGGACTCTTCCATCTGTTCACGgtaatt-aaccggacagttcgatcaaacaaaggtttt-tgtgttatttggtttctgaactgagtgattgtttttcacacag-------------------

upper sequence: GRMZM2G115939_T02 (Zea mays), 5'ss of exon 6
lower sequence: PP1S61_126V6.1 (Physcomitrella patens), 5'ss of exon 5
----------GGCAATGTCTGTCTGAACATTCTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgta--tttcagctatcttgtttccccaattgttgaaataatacatttagaaattgggaagatgaaagaatagtgtttgcatttttgcatgcattgttgtcat
          |||||||| |||||||| ||||| ||||| |||||||||||||| || |   | ||| |  | || ||||| ||  |   ||| ||   ||||  |||| | |||  | | |       ||      |  |      | || |   |  |   | | ||  | ||  |  ||  || | |   | | | |  
AGATCTGGAAGGCAATGTGTGTCTGAATATTCTTCGTGAGGATTGGAAGCCTGTGCTGAGTGTAAACTCTATCATATATGGTCTCCAATATCTATTCTTGgtaggtttctgatattatctgttaatgtgtgaccttgtggtttgaaaataattcttggggtccagacaactgcgtg-gtgttaatg-aagtggtatagcctc

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|26455341|gb|CA826924.1|CA826924
EST:     CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
EST: gi|211060519|gb|FL179753.1|FL179753
EST:     CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
EST: gi|21330709|gb|BQ486090.1|BQ486090
EST:     CTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: CTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
EST: gi|32847082|gb|CD986763.1|CD986763
EST:     CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
EST: gi|8516401|gb|BE123127.1|BE123127
EST:     CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
EST: gi|211378878|gb|FL474247.1|FL474247
EST:     CCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: CCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
EST: gi|32846744|gb|CD986425.1|CD986425
EST:     CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: CTGTTCTCAACATCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
EST: gi|211441546|gb|FL398417.1|FL398417
EST:     TCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACG                         CAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT
genomic: TCAACACCGTTATTTATGGCCTGAATCTTCTTTTTACGgtatttcagc ... ttacctgcagCAACCAAACGACGAGGATCCTTTGAACCACGAAGCTGCAGCTGTCCTCCGT