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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAAGGTCGTTTCTTATCTCGGCATGTGCATCAAGTCATATTGGACATCATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttttcatgcctgcctgctccgtgagggcacggatgcacggtaacctcgaaactgaaactaatgtgctcgcttaatgtctgcag

Basic information

species Zea mays
transcript GRMZM2G090573_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|78118153|gb|DV536540.1|DV536540
EST:     ATTGATAGAGCGATGAGAGCGTTTTTTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATTGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|91054249|gb|EB164667.1|EB164667
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|78023987|gb|DV492374.1|DV492374
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|5455985|gb|AI833675.1|AI833675
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|211223063|gb|FL465834.1|FL465834
EST:     ATTGATAGAGCGATGAGAGCGTTTTTTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|6022349|gb|AW067277.1|AW067277
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|211223064|gb|FL465835.1|FL465835
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|71758499|gb|DR956436.1|DR956436
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|78023641|gb|DV492028.1|DV492028
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|149094930|gb|EE180513.2|EE180513
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|166700520|gb|EG080127.1|EG080127
EST:     CGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: CGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|78111121|gb|DV529518.1|DV529518
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
EST: gi|71307953|gb|DR790196.1|DR790196
EST:     ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAG                         GATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG
genomic: ATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttt ... atgtctgcagGATCCTTCCAAGCGACGACTGGTTCATCGACGTTGCCCAGGAGAGTATTAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCAAGGTCGTTTCTTATCTCGGCATGTGCATCAAGTCATATTGGACATCATTGATAGAGCGATGAGAGCGTTTTCTGCCACGGGGATGGACCCTGATAGgtatcagttttcatgcctgcctgctccgtgagggcacggatgcacggtaacctcgaaactgaaactaatgtgctcgcttaatgtctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA