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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttcctggttcttctgcattttgtactttataattgattgcttgaacacgttttaatacctggtaataacatattagGTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAGCTAGTCGAGAAATATAATTGGATTGCAACTGAGAAACAATTGTTTGGGA

Basic information

species Zea mays
transcript GRMZM2G006452_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006452_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g67740.1 (Oryza sativa), 3'ss of exon 14
-------gtagttcctggttcttctgcat-tttgtactttataattga--ttgcttgaacacgttttaatacctggtaataacatat------tagGTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAGCTAGTCGAGAAATATAATTGGATTGCAACTGAGAAACAATTGTTTGGGA
        | |||      ||| || ||| ||| | |||||||  |||    |       |  ||||  | |     |||  ||| |      |||||||||||||||||||| ||||||||||||||||||||||  ||||||||| |||| ||||| || | ||||||||||||||| ||||| |||||||| |
gtaactgttggttgtaatctctgctacatatttctgctttataggtgaagcagaccttttattttttttttctaaacaattgcatgtaacatgtagGTTAAGAGGATGGAGATTGAGCAGAAGGATTGCTCTTCAAAGGTTGATAAGTTAGTAGAGAAGTACAGTTGGATTGCAACTGAAAAACAGTTGTTTGGAA
















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|211188348|gb|FL216446.1|FL216446
EST:     AGAAAATGGAAAATGAG                         GTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTCGATAAG
genomic: AGAAAATGGAAAATGAGgtagttcctg ... aacatattagGTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAG
EST: gi|33095034|gb|CF055028.1|CF055028
EST:     AACAGAAGTTAAGTGATTCAAATGTTGAGAGGAAGAAAATGGAAAATGAG                         GTTAAGAGGATGGAGGTAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAG
genomic: AACAGAAGTTAAGTGATTCAAATGTTGAGAGGAAGAAAATGGAAAATGAGgtagttcctg ... aacatattagGTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAG
EST: gi|211188349|gb|FL216447.1|FL216447
EST:     AGAAAATGGAAAATGAG                         GTTAATAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTCGATAAG
genomic: AGAAAATGGAAAATGAGgtagttcctg ... aacatattagGTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAG
EST: gi|32930664|gb|CF035476.1|CF035476
EST:     AACAGAAGTTAAGTGATTCAAATGTTGAGAGGAAGAAAATGGAAAATGAG                         GTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAG
genomic: AACAGAAGTTAAGTGATTCAAATGTTGAGAGGAAGAAAATGGAAAATGAGgtagttcctg ... aacatattagGTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAG
EST: gi|32933775|gb|CF038587.1|CF038587
EST:     AACAGAAGTTAAGTGATTCAAATGTTGAGAGGAAGAAAATGGAAAATGGG                         GTTAAGAGGATGGAGATCGGAGG-GA-GGATTGCTCTTCAATAGTTGATAA
genomic: AACAGAAGTTAAGTGATTCAAATGTTGAGAGGAAGAAAATGGAAAATGAGgtagttcctg ... aacatattagGTTAAGAGGATGGAGATAG-AGCAGAAGGATTGCTCTTCAATAGTTGATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactttataattgattgcttgaacacgttttaatacctggtaataacatattagGTTAAGAGGATGGAGATAGAGCAGAAGGATTGCTCTTCAATAGTTGATAAGCTAGTCGAGAAATATAATTGGATTGCAACTGAGAAACAATTGTTTGGGA
                                         taataac  putative branch site (score: 1)
                                         taataacatatta  TA-rich tract