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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatataactgctttcaatggcattaatcatgtgggatcattttgtaagcaatcaactatttttcattgttaaaattaacgttttgaattctctttccagGTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAGCGGAATCTTGCATCAATTGAGGGGAGTTGGTTTGGATCCTGGGCACCGG

Basic information

species Zea mays
transcript GRMZM2G079236_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079236_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g25310.2 (Oryza sativa), 3'ss of exon 6
---acatataactg--ctttcaatggcattaatcatgtgggatcattttgtaagcaatcaactatttttcattgttaaaattaacgttttgaattctctttccagGTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAGCGGAATCTTGCATCAATTGAGGGGAGTTGGTTTGGATCCTGGGCACCGG
   |   | || ||  |  ||||      | ||||||    |  || | ||    || ||  || || ||||    ||| ||||  |||  |||| | |||||||||||||||||||||||| ||||| ||||||||||||||  |||| ||||| || ||||||| | | ||||| || ||||||||||||||||||||||| |
tgcaggcagaattgaacggtcaaattttatgatcatgcaccaaaatatggtt--taaaca--tacttctcatctcaaaacttaatattt-aaattatgtttccagGTTGGTGAGAAGGGTGGTCTGACCAAAAAGCTGTTTGACATTGCCTATAAACGAAATCTTGGAGCTATTGAAGGAAGTTGGTTTGGATCCTGGGCACCAG
















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|211295641|gb|FL337574.1|FL337574
EST:     TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAA                         GTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG
genomic: TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAAgtgagtttat ... ctctttccagGTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG
EST: gi|211103068|gb|FL309408.1|FL309408
EST:     TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAA                         GTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG
genomic: TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAAgtgagtttat ... ctctttccagGTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG
EST: gi|211440066|gb|FL316513.1|FL316513
EST:     TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAA                         GNTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG
genomic: TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAAgtgagtttat ... ctctttccagGTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG
EST: gi|211485905|gb|FL317496.1|FL317496
EST:     TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAA                         GTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG
genomic: TTTCAGTTCCTGCAATTTTGGATCGTATCAGAGATGCAGTGTTTAAGAAAgtgagtttat ... ctctttccagGTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagcaatcaactatttttcattgttaaaattaacgttttgaattctctttccagGTTGGTGAGAAGGGTGGCCTGACAAAAAAGCTGTTTGATTTTGCATATAAGCGGAATCTTGCATCAATTGAGGGGAGTTGGTTTGGATCCTGGGCACCGG
                            aattaac  putative branch site (score: 2)
                                           ttctctttcc  putative PPT
     aatcaactatttttca  TA-rich tract