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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGCAGCAACAGCAAGCAAGCAGGAAGGCAAGGCGGTGCTGGTCACCGGAGCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTGGGTGGCCCTCAAGgtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcag

Basic information

species Zea mays
transcript GRMZM2G171468_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171468_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g55590.1 (Oryza sativa), 5'ss of exon 3
CAGCAGCAACAGCAAGCAAGC-AGGAAGGCAAGGCGGTGCTGGTCACCGGAGCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTGGGTGGCCCTCAAGgtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccc-cactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcag
|||||||| ||||| ||| || |||||| | |||||||||||||| |||||||||||||||| |||||| ||||| |||||  | || |||||||| |||||| | | |    |  ||| |  | |  || |||  |  |||||||   | || |    || | | |  |      ||    |  | |   | |                           
CAGCAGCAGCAGCA-GCAGGCGAGGAAGTCGAGGCGGTGCTGGTCGCCGGAGCTTCACCGGCAGTTCGTCGCCGCCTTGCAGCAGCTCGGTGGCCCCCAAGgt-atattacatggtcgaccatc-attttcaccttccataatttgcaaagatcaccggaaatcctcatatcttgttgttccaccatgattgcag--------------------------

upper sequence: GRMZM2G171468_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G39040.1 (Glycine max), 5'ss of exon 3
CAGCAGCAACAGCAAGCAAGCAGGAAGGCAAGGCGGTGCTGGTCACCGGAGCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTGGGTGGCCCTCAAGgtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcag--
|||||    |||||       |||||   | ||||||||||||| ||||||||||||||||| || || | |||  | ||  |||| |||||  | |||||        |  | |   | | ||  ||||  |  |||  |||  |  |||      || | |||      ||||||||     | |  | | |    | | | |   ||  |||||    
CAGCATATGCAGCAGAATCCGAGGAAACAACGGCGGTGCTGGTCGCCGGAGCTTCACCGGCGCTTTGTGGACGCCCTTCAACAACTTGGTGGAGCACAAGg--------taggcctagttgact--ctttgtc-tcatggattgttttaaa------aatgatccg----tgactgcaatttggactgtgaagttgatgcttttttggggtgtttgcttcg

upper sequence: GRMZM2G171468_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv07s0197g00060.t01 (Vitis vinifera), 5'ss of exon 3
CAGCAGCAACAGCAAGCAAGCAGGAAGGCAAGGCGGTGCTGGTCACCGGAGCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTGGGTGGCCCTCAAGgtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcag-
||||  |  || || | || ||||||    ||||||||||||||||||||||| || ||||| |||||   |||| | ||  |||| || ||  |||||||||||  | | |     | |    |     |     ||   ||   || |||   |     ||      |  | |               |  |      | |  | |  | ||  ||| 
CAGCCACCGCAACAGGGAATCAGGAAACAGAGGCGGTGCTGGTCACCGGAGCTACATCGGCGTTTCGTCAACGCTCTTCAACAACTTGGGGGATCTCAAGgtcag--tataaatttaaccagaaaagggaaaaa--atgggtt---ccgaatttcagggtttttttgtttttatttt-------------tccttttcccttttcctttaatttctcagc

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|211088120|gb|FL191873.1|FL191873
EST:     GCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTCGGTGGCCCTCAAG                         TGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAA
genomic: GCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTGGGTGGCCCTCAAGgtcagagtgt ... gaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAA