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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgctcctcaatactcagcttccatccatcttcatccgcatgcacagtatatatgcctgccatgaactccgcctggagtatatgtatatgccgtgacgtgtgactccaccgccgtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTGCCGGCGTGCAAGGTGGAGCCCAGGGATCACAAG

Basic information

species Zea mays
transcript GRMZM2G133331_T01
intron # 4
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|89764378|gb|DY691211.1|DY691211
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|101391801|gb|EB817829.1|EB817829
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|71448696|gb|DR829746.1|DR829746
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|76931345|gb|DV172707.1|DV172707
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|74237892|gb|DT645806.1|DT645806
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|93017001|gb|EB642521.1|EB642521
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|71311268|gb|DR791947.1|DR791947
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|71773720|gb|DR971616.1|DR971616
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|76923172|gb|DV169368.1|DV169368
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|71330993|gb|DR802318.1|DR802318
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|50329600|gb|CO524726.1|CO524726
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|91868422|gb|EB400029.1|EB400029
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
EST: gi|91871984|gb|EB401941.1|EB401941
EST:     TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATG                         GGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG
genomic: TCGTCGTCACCAGCCCGCTCGCCGAGACGGCCTCCACCGACGTCGACATGgtctgctcct ... gtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgcctggagtatatgtatatgccgtgacgtgtgactccaccgccgtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTGCCGGCGTGCAAGGTGGAGCCCAGGGATCACAAG
          tatatgtatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgctcctcaatactcagcttccatccatcttcatccgcatgcacagtatatatgcctgccatgaactccgcctggagtatatgtatatgccgtgacgtgtgactccaccgccgtcgtcgtagGGTGGAGGTGGAGCCATGGCGCAGAGCGTCGACGGACATGACAACTCATTGCCGGCGTGCAAGGTGGAGCCCAGGGATCACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG