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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttgctaatcatgattgttttatttcatgtaaatgtatttattttcatttttacgagttcattttccttaacagctagcacaataatctcatttttagGCAACTTATCTGGAGAGATTGTGTGGGGAGCTCTTGATGACGTTGTGATGGGTGGTGTTAGTGAAAGTACATTCCAAATCTTGCCAACAGGAAGTGAAAG

Basic information

species Zea mays
transcript GRMZM2G019358_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019358_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g13970.2 (Oryza sativa), 3'ss of exon 7
--tttttgctaatcatgattgttttatttcatgtaaatgtatttattttcatttttacgagttcattttccttaacagctagcacaataatc-tcatttttagGCAACTTATCTGGAGAGATTGTGTGGGGAGCTCTTGATGACGTTGTGATGGGTGGTGTTAGTGAAAGTACATTCCAAATCTTGCCAACAGGAAGTGAAAG
   |||| | |  | |   ||| |       ||||  | || || | ||    | ||  ||||  ||||||||| ||   | ||   || |  |  | ||||||||||||||| ||| ||||||| |||||||| |||||||| ||||||||||| |||||||||||||| ||||||||||||   |||||||||||||||| 
ttatttttccatccctacatgtgtatacatttgtatgt-tagttgtctttcaatatataagttttttttccttatca--caacatgttagttattttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGGGAGGTGTTAGTGAAAGCACATTCCAAATCCAACCAACAGGAAGTGAAAC

upper sequence: GRMZM2G019358_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G29330.1 (Glycine max), 3'ss of exon 7
tttttgctaatcatgattgttttatttcatgtaaatgtatttattttcatttttacgagttcattttccttaa---cagctagcacaataatctcatttttagGCAACTTATCTGGAGAGATTGTGTGGGGAGCTCTTGATGACGTTGTGATGGGTGGTGTTAGTGAAAGTACATTCCAAATCTTGCCAACAGGAAGTGAAAG
|  || ||  |  |  ||||  | | |  ||  |    |  | |||| | |||||| | |   | | |  | |    |  | |     || | ||  ||  ||||||    |   |  || ||   ||||| ||| | ||||| || ||||||||||| ||||||||||||||||| |||||    ||||  ||  |||||| 
taattactgttggt--ttgtactttgtattgagagaacaagtgtttttagttttactactgtgtgtccagtgaatataatttgttttctattttc-cttgcagGCAATAATTACAGGCAGCTTCCTTGGGGTGCTTTAGATGATGTGGTGATGGGTGGAGTTAGTGAAAGTACATTTCAAATTGACCCAAGTGGGGGTGAAAA
















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|13249799|gb|BG360704.1|BG360704
EST:     AAAGAGTAGTGTTGGACTGAGTGAAGGGAAACTGCTATTTGGTTTCAAAG                         GCAACTTATCTGGAGAGATTGTGTGGGGAGCTCTTGATGACGTTGTGATGG
genomic: AAAGAGTAGTGTTGGACTGAGTGAAGGGAAACTGCTATTTGGTTTCAAAGgtataccctt ... tcatttttagGCAACTTATCTGGAGAGATTGTGTGGGGAGCTCTTGATGACGTTGTGATGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatttttacgagttcattttccttaacagctagcacaataatctcatttttagGCAACTTATCTGGAGAGATTGTGTGGGGAGCTCTTGATGACGTTGTGATGGGTGGTGTTAGTGAAAGTACATTCCAAATCTTGCCAACAGGAAGTGAAAG
                      ccttaac  putative branch site (score: 3)
                                           tctcattttt  putative PPT
                                      aataatctcattttta  TA-rich tract