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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatatttggtttgttgcattttatagtgatatttatttattgtttcaagcaaatgcttggtctaactgaataacaactgataagcatgaattgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCATCAGACTCTGTTGCAATAATTGCAGCCAATGCACAGACAGCAATTCCTTA

Basic information

species Zea mays
transcript GRMZM2G025854_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os10g11140.2 (Oryza sativa), 3'ss of exon 13
--ctatatttggtttgttgcattttatagtgatattt--atttattgtttcaagcaaatgcttggtctaactgaataacaactgataagcatgaattgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCATCAGACTCTGTTGCAATAATTGCAGCCAATGCACAGACAGCAATTCCTTA
   | |  ||  ||| ||   | |   ||  |  |||   |||| |   | |||  |||  |  || | |   |||||||  | | | | |  |||  || |||||||||||||||| |||||||||||||| | |||||||||| |||| ||||||||||||||||||||||||||||| ||||||||| |||||||||||||
tctttttctttattttttttttgtgcgaggaaccttttagtttagttgctgaagggaatatt--gtgtgaacaaataaca--ttagaggtaaaaatgcttgcagGTGATGGTGATCGAAACATGATTCTTGGAAGAAGGTTCTTTGTTACACCATCAGACTCTGTTGCAATAATTGCAGCGAATGCACAGGCAGCAATTCCTTA

upper sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 13
lower sequence: EFJ34621 (Selaginella moellendorffii), 3'ss of exon 12
ctatatttggtttgttgcattttatagtgatatttatttattgtttcaagcaaatgcttggtctaactgaataacaactgataagcatgaattgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCATCAGACTCTGTTGCAATAATTGCAGCCAATGCACAGACAGCAATTCCTTA
                   |     || | ||   | |  ||  | | |||  ||  ||        |||||        | ||| |||        |||||||||| || ||||||||||| || || || |  |||||| | || || || ||||||||||| || |||||||||||||| ||| ||   ||||| ||
------------------gtaaagcagagttaaaaact--ttactgcgagcggattttt--------tgaat-----tcaaaaagaatg--------cagGTGATGGAGACCGGAACATGATCCTAGGCAACAATTTCTTTGTCACTCCTTCGGACTCTGTTGCCATGATTGCAGCCAATGCTCAGCCATGCATTCCATA

upper sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 13
lower sequence: EFJ32824 (Selaginella moellendorffii), 3'ss of exon 12
ctatatttggtttgttgcattttatagtgatatttatttattgtttcaagcaaatgcttggtctaactgaataacaactgataagcatgaattgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCATCAGACTCTGTTGCAATAATTGCAGCCAATGCACAGACAGCAATTCCTTA
                      || ||     || |    || || | |||  ||  ||    | | |  ||||         ||||||        |||||||||| || ||||||||||| || || || |  |||||| | || || || ||||||||||| || |||||||||||||| ||| ||   ||||| ||
---------------------gtaaagcagagttaaaactttattgcgagcggattttt----tgaattcataa---------agcatg--------cagGTGATGGAGACCGGAACATGATCCTAGGCAACAATTTCTTTGTCACTCCTTCGGACTCTGTTGCCATGATTGCAGCCAATGCTCAGCCATGCATTCCATA

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|32841182|gb|CD980863.1|CD980863
EST:     TTTTACTATGTTTGGAACCCATGCACCTGACTTTGGTGCAGCAAGTGATG                         GTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCAT
genomic: TTTTACTATGTTTGGAACCCATGCCCCTGACTTTGGTGCAGCAAGTGATGgtatgtctgg ... attgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCAT
EST: gi|9028761|gb|BE238801.1|BE238801
EST:     TTTTACTATGTTTGGAACCCATGCACCTGACTTTGGTGCAGCAAGTGATG                         GTGATGGTGATCGGAACATGATTCTTGGGAAAAG
genomic: TTTTACTATGTTTGGAACCCATGCCCCTGACTTTGGTGCAGCAAGTGATGgtatgtctgg ... attgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAG
EST: gi|32840471|gb|CD980152.1|CD980152
EST:     TTTTACTATGTTTGGAACCCATGCACCTGACTTTGGTGCAGCAAGTGATG                         GTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCAT
genomic: TTTTACTATGTTTGGAACCCATGCCCCTGACTTTGGTGCAGCAAGTGATGgtatgtctgg ... attgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCAT
EST: gi|32839734|gb|CD979415.1|CD979415
EST:     TTTTACTATGTTTGGAACCCATGCACCTGACTTTGGTGCAGCAAGTGATG                         GTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCAT
genomic: TTTTACTATGTTTGGAACCCATGCCCCTGACTTTGGTGCAGCAAGTGATGgtatgtctgg ... attgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCAT
EST: gi|32943498|gb|CF048317.1|CF048317
EST:     TTTTACTATGTTTGGAACCCATGCACCTGACTTTGGTGCAGCAAGTGATG                         GTGATGGTGATCGGAACATAATTCTTGGGAAAAGGTTCTTTATTACCCCAT
genomic: TTTTACTATGTTTGGAACCCATGCCCCTGACTTTGGTGCAGCAAGTGATGgtatgtctgg ... attgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagcaaatgcttggtctaactgaataacaactgataagcatgaattgtttcagGTGATGGTGATCGGAACATGATTCTTGGGAAAAGGTTCTTTATTACCCCATCAGACTCTGTTGCAATAATTGCAGCCAATGCACAGACAGCAATTCCTTA
                                              ttgtttc  CT-rich tract
                        aataacaa  TA-rich tract