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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaatggatgacgcaatgcagatcacattaaagaatgatattgaaaccagtggccttatctactgttacatctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGAGAGTACAAGAAACTGGCCGACGATGGTGAACCTCATCTACTGTTGGACG

Basic information

species Zea mays
transcript GRMZM2G160842_T02
intron # 10
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|91049657|gb|EB160075.1|EB160075
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAG                         GCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
EST: gi|211251414|gb|FL479560.1|FL479560
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAG                         GCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
EST: gi|166599689|gb|EG300720.1|EG300720
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAG                         GCAGCAGCAAGCGT
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGT
EST: gi|211494115|gb|FL300919.1|FL300919
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAG                         GCAGCACCAAGCGTGAACGTACTTCCAGAGAGCGCGCGGATCACTTGCAGA
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
EST: gi|89249844|gb|DY621630.1|DY621630
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAG                         GCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
EST: gi|16746025|gb|BM032455.1|BM032455
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGNCACCAATGTCTGACAAG                         GCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
EST: gi|78106503|gb|DV524921.1|DV524921
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAG                         GCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
EST: gi|18384856|gb|BM418055.1|BM418055
EST:     TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGACAAG                         GCAGCACCAAGCGCGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA
genomic: TTCAGAAGTTTGACTATGAGAGCTTCACACAGTCACCAATGTCTGATAAGgtatgtgaat ... tctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattaaagaatgatattgaaaccagtggccttatctactgttacatctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGAGAGTACAAGAAACTGGCCGACGATGGTGAACCTCATCTACTGTTGGACG
        aatgatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtgaatggatgacgcaatgcagatcacattaaagaatgatattgaaaccagtggccttatctactgttacatctactgcagGCAGCACCAAGCGTGAACGTACTCCCAGAGAGCGCGCGGATCACTTGCAGAGAGTACAAGAAACTGGCCGACGATGGTGAACCTCATCTACTGTTGGACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA