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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACGTGACAGCGCGAGTAAGGCTGAATGTCTATGCGAAATGAGCTCAGCAGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcatttgccgttgttctttccttgagatttggctcttagaattccgctggtcttgctcttacacagttgcttttgtttag

Basic information

species Zea mays
transcript GRMZM2G096962_T01
intron # 6
splice site 5'
intron type U2

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|32830089|gb|CD969767.1|CD969767
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGCGAAGC-TGATGTTTGCCAG                         TGCAGAGATTTTGCTNG-AAGTGCCAGGTGCTGCGGTAGACATGAGGCCTG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCT-GCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTG
EST: gi|32829709|gb|CD969387.1|CD969387
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGCGAAGC-TGATGTTTGCCAG                         TGCAGAGATTTTGCTGAAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|31355725|gb|CD440082.1|CD440082
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGCGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGAAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|16379884|gb|BI993198.1|BI993198
EST:     AGTTACAGACCCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|149010029|gb|EE041834.2|EE041834
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|16926981|gb|BM080049.1|BM080049
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAAACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|83279377|gb|DV943385.1|DV943385
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|148985808|gb|EE029766.2|EE029766
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|32848919|gb|CD988600.1|CD988600
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGCGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGAAAGTGCCAGGTGCTGCGGTAGACATG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATG
EST: gi|32828996|gb|CD968674.1|CD968674
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGCGAAGCCTGATGTTTGCCAG                         TGCAGAGATTTTGCTGAAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|32829797|gb|CD969475.1|CD969475
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGCGAA-CCTGATGTTTGCCAG                         TGCAGAGATTTTGCTGAAAGTGCCAGGTGCTGCGGTAGACATGAAGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|16918822|gb|BM073911.1|BM073911
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|148967374|gb|EE018593.2|EE018593
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|32829763|gb|CD969441.1|CD969441
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGCGTAGCATGATGTTTGCCAG                         TGCAGAGATTTTGCTGAAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
EST: gi|13315933|gb|BG410281.1|BG410281
EST:     AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAG                         ---AGA--TTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG
genomic: AGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcat ... ttttgtttagTGCAGAGATTTTGCTGCAAGTGCCAGGTGCTGCGGTAGACATGAGGCCTGG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACGTGACAGCGCGAGTAAGGCTGAATGTCTATGCGAAATGAGCTCAGCAGTTACAGAACCTCGAGTAATGGACTTTGGAGAAGCCTGATGTTTGCCAGgcgagctcatttgccgttgttctttccttgagatttggctcttagaattccgctggtcttgctcttacacagttgcttttgtttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC