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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agacctgctagggcatgccttgaaaacaagacaattataaagccatattttggaaatttaaatgttttgtctacattatactaatgaggaaaaattccagGTTCTTTTGGTACTGTGCACCGTGCGGATTGGAATGGTTCG

Basic information

species Zea mays
transcript GRMZM2G059671_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g32610.3 (Oryza sativa), 3'ss of exon 7
agacctgctagggcatgccttgaaaacaag---acaattataaagccatat-tttggaaatttaaatgttttgtctacattatactaatgaggaaaaattccagGTTCTTTTGGTACTGTGCACCGTGCGGATTGGAATGGTTCG
    | |  |   ||     ||||||  |    |  || || ||||    | |||  | ||||  || |||| | ||   |  ||||||   |||||||  |||| || ||||| || ||||||||||||||||||||||| |||
---tccgtgacctcacattgtgaaaattaatgaatgatcatgaagctgcctatttccagattttgatatttt-tgtagtgtgcactaattgagaaaaatgacagGCTCATTTGGAACCGTGCACCGTGCGGATTGGAATGGCTCG

upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv08s0007g03910.t01 (Vitis vinifera), 3'ss of exon 6
----agacctgctagggc--atgccttgaaaacaagacaattataaagccatattttggaaatttaaatgttttgtctacattatactaatgaggaaaaattccagGTTCTTTTGGTACTGTGCACCGTGCGGATTGGAATGGTTCG
    || ||   | |||   |    ||    | || | ||| |||     | |||||| |   ||   |  ||   ||  ||| |  |  ||      | |||||||||||||||| ||||| || ||||| ||||||||||| |||
ttcaagtcccaatggggacaaaagtttacctataaaataataatagtaata-attttgtaggattttgttcttaaactgaattgtcttggtgc-----atttccagGTTCTTTTGGGACTGTTCATCGTGCTGATTGGAATGGATCG
















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|211082601|gb|FL182313.1|FL182313
EST:     CTTGATTATCCCATGGAGTGAGCTTGTTCTGAAAGAGAAAATTGGTGCAG                         GTTCTTTTGGTACTGTGCACCGTGCGGATTGGAATGGTTCG
genomic: CTTGATTATCCCATGGAGTGAGCTTGTTCTGAAAGAGAAAATTGGTGCAGgtgtgtttcc ... aaaattccagGTTCTTTTGGTACTGTGCACCGTGCGGATTGGAATGGTTCG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttggaaatttaaatgttttgtctacattatactaatgaggaaaaattccagGTTCTTTTGGTACTGTGCACCGTGCGGATTGGAATGGTTCG
                                 tactaat  putative branch site (score: 1)
        aaatttaaatgttttg  TA-rich tract