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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttactttcacaggatttcattttcttgatgtttgcatacatatctgctttgagccagtctgagtaaaatgtttatggtgttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGACTTTCAG

Basic information

species Zea mays
transcript GRMZM2G025340_T01
intron # 24
splice site 3'
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|211018176|gb|FL213621.1|FL213621
EST:     TCAGTGGGCACATCAATGTAGA-T-TAAGAATGAAGTTCTGTCTGTTGAG                         CTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
genomic: TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAGgtgagttact ... ttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
EST: gi|32932707|gb|CF037519.1|CF037519
EST:     TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAG                         CTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
genomic: TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAGgtgagttact ... ttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
EST: gi|211018178|gb|FL213623.1|FL213623
EST:     TCTGTGGGCACATCAATGTAGA-T-TAAGAATGAAGTTCTGTCTGTTGAG                         CTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
genomic: TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAGgtgagttact ... ttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
EST: gi|32931357|gb|CF036169.1|CF036169
EST:     TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAG                         CTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
genomic: TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAGgtgagttact ... ttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
EST: gi|32930376|gb|CF035188.1|CF035188
EST:     TCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAG                         CTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
genomic: TCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAGgtgagttact ... ttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
EST: gi|32931744|gb|CF036556.1|CF036556
EST:     TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAG                         CTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
genomic: TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAGgtgagttact ... ttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
EST: gi|211018179|gb|FL213624.1|FL213624
EST:     TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAG                         CTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA
genomic: TCAGTGGGCACATCAATGTAGATTATAAGAATGAAGTTCTGTCTGTTGAGgtgagttact ... ttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catacatatctgctttgagccagtctgagtaaaatgtttatggtgttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGACTTTCAG
                           agtaaaatgtttat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttactttcacaggatttcattttcttgatgtttgcatacatatctgctttgagccagtctgagtaaaatgtttatggtgttcactgtagCTGACAATGCCTCAAGATGCGTCTCGTGATACCATTAGAGACACTAGAGGACTTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA