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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcatgttttgtttcgagattgctccaactccttgattgcaattacctttcctgagaatgctgaaggcgttgtttgtaactgtttacctgttttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCCATTCTACGTGAGGACCAGCTTCCTCAGAAGGTTCTTCATCCTAAATTGA

Basic information

species Zea mays
transcript GRMZM2G079143_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079143_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g02360.1 (Oryza sativa), 3'ss of exon 3
--tcatgttttgtttcgagattgctccaactccttgattgcaattacctttcctgagaatgctgaaggcgttgtttgtaactgtttacctgttttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCCATTCTACGTGAGGACCAGCTTCCTCAGAAGGTTCTTCATCCTAAATTGA
  |    | || || |  |    | ||    | ||        | |    | ||| ||   |  |||   || ||| ||| ||| | ||| ||||||| |||||||| ||||||||||| ||||||||||||||||||||||||||||| |||||| | ||||| ||||||||||| ||||||||||| || ||||||| ||
ggttggatatttttccatgtgcccacctggccttt--ccaagttgattcctactgtgatgacaaaagattttctttttaattgtatgcctattttctttcagTTTTCCCTCCCAATGCCCCAAGGTGGAAGAGATGCCATAACTAAGAATCCCATTTTGCGTGAAGACCAGCTTCCCCAGAAGGTTCTGCACCCTAAATCGA

upper sequence: GRMZM2G079143_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv02s0025g03690.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------------------------------------------tcatgttttgtttcgagattgctccaac-tccttgattgcaat-tacctttcctgagaatgc-tgaaggcgt-tgtttgtaactgttt---------acctgttttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCCATTCTACGTGAGGACCAGCTTCCTCAGAAGGTTCTTCATCCTAAATTGA
                                                                                |   || | |||  |     |||||   |  |||     ||   ||   |  ||   ||   |  |    | | | | ||  | | |         || ||  | | |||||||||| || ||  |||| | |||||||||||||||||| ||||||||||| ||| ||||||| || || || ||||| ||| | || || || ||    |
gtaagtaaatgattctcaagcttttctatttcttagcaattactgtgaagtgttctggttcatactgttccttggttgtgcccattattttttcaagcaactccagtatggttgtacataaagcacgaatattgcagatatatatatatatatatatatatatatatgtggctgacacttggctgcatgcagTTTTCACTGCCTTTGCCGCGAGGTGGAAGAGATGCCATTACTAAGAACCCGATTTTACGTGAAGATCAACTCCCTCACAAGCTCCTGCACCCCAAGACAA
















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|88753974|gb|DY538115.1|DY538115
EST:     GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAA                         TTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
genomic: GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAAgtgagtgcat ... tttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
EST: gi|211345612|gb|FL479622.1|FL479622
EST:     GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAA                         TTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
genomic: GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAAgtgagtgcat ... tttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
EST: gi|111433439|gb|EE297756.1|EE297756
EST:     GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAA                         TTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
genomic: GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAAgtgagtgcat ... tttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
EST: gi|12046018|gb|BF728053.1|BF728053
EST:     GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAA                         TTTTCGCTCCCAATGCCTCAAGGAGGAAGAGATGCCATAACTAAGAACCCC
genomic: GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAAgtgagtgcat ... tttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
EST: gi|60348779|gb|DN215752.1|DN215752
EST:     GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAA                         TTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
genomic: GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAAgtgagtgcat ... tttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
EST: gi|45567461|gb|CK985583.1|CK985583
EST:     GGATCACTATTGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAA                         TTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
genomic: GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAAgtgagtgcat ... tttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
EST: gi|60398110|gb|DN230926.1|DN230926
EST:     GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAA                         TTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC
genomic: GGATCACTATGGCTTCACGGCGCCCACGTGTTACACTTCGAGGCACAAAAgtgagtgcat ... tttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcctgagaatgctgaaggcgttgtttgtaactgtttacctgttttcttgcagTTTTCGCTCCCAATGCCTCAAGGTGGAAGAGATGCCATAACTAAGAACCCCATTCTACGTGAGGACCAGCTTCCTCAGAAGGTTCTTCATCCTAAATTGA
                           ttgtaac  putative branch site (score: 2)
                                    tttacctgttttctt  putative PPT
                          tttgtaa  TA-rich tract