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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatctgtcagaaactttacaccttgcttcacttgccaagtagaatgtgaacttctgtgtcttctatgtagtccgagatcaaagtaacatatgtgctgatttgcaactccgactttgattttgttgaaatttaactagtggtttgctccttttgtagTTTCACTGCTCAAGTGGCATCAGTTTTATGGAG

Basic information

species Zea mays
transcript GRMZM2G412911_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G412911_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g18730.1 (Oryza sativa), 3'ss of exon 12
gtatgcatctgtcagaaactttacaccttgcttcacttgccaagtagaatgtgaacttctgtgtcttctatgtagtccgagatcaaagtaacatatgtgctgatttgcaact-----ccgactttgattttgttgaaatttaactagtggtttgctccttttgtagTTTCACTGCTCAAGTGGCATCAGTTTTATGGAG
||||| |||| | | | | ||| |           ||||||        |||| | || | | ||||  |||||||||||| ||||||||   || |  ||||  ||||| |     | |||||||||||| |||||| ||||| |||| |||||| |||||||||||| | ||||||||||| ||||||  | |||||
gtatgtatctcttatagaattttc-----------cttgccg-------tgtgtattttttt-tctttaatgtagtccgagttcaaagtag--tacgaactgacctgcaaattaaggctgactttgattttcttgaaacttaaccagtg-tttgctacttttgtagTTTAAATGCTCAAGTGGTATCAGTCCTGTGGAG
















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|26457309|gb|CA828892.1|CA828892
EST:     AGGTCACAACTAAGAATATTGGTACACTGGAGGCTTCGTATACCTTGACA                         TTTCACTGCTCAAGTGGCATCAGTTTTATGGAG
genomic: AGGTCACAACTAAGAATATTGGTACACTGGAGGCTTCGTATACCTTGACAgtatgcatct ... ccttttgtagTTTCACTGCTCAAGTGGCATCAGTTTTATGGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaactccgactttgattttgttgaaatttaactagtggtttgctccttttgtagTTTCACTGCTCAAGTGGCATCAGTTTTATGGAG
                          atttaac  putative branch site (score: 3)
                                       tttgctccttttgt  putative PPT
           tttgattttgttgaaa  TA-rich tract