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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGCGCTCGCAGGGTGTTCGACCCTTCGCCCGCGCGCCCTCACGACATGGCCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtccgccctctcccggccggtctccccacttccgtccctccttctctcgcgccacgttactgaccgaccgaccccacttctcttccctttcccgccagcag

Basic information

species Zea mays
transcript GRMZM2G010044_T03
intron # 1
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|76909966|gb|DV163627.1|DV163627
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211185239|gb|FL072193.1|FL072193
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211185239|gb|FL072193.1|FL072193
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211185239|gb|FL072193.1|FL072193
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211185239|gb|FL072193.1|FL072193
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211185239|gb|FL072193.1|FL072193
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211185232|gb|FL072186.1|FL072186
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211190029|gb|FL072209.1|FL072209
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211190029|gb|FL072209.1|FL072209
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211190029|gb|FL072209.1|FL072209
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211190029|gb|FL072209.1|FL072209
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|211190029|gb|FL072209.1|FL072209
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         G
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcag-
EST: gi|71772889|gb|DR970812.1|DR970812
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAGCAG                 
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCG--C-A----CA--AGgtccaggtcc ... cc
EST: gi|211185236|gb|FL072190.1|FL072190
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|76012112|gb|DT939282.1|DT939282
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211187639|gb|FL072208.1|FL072208
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|31355882|gb|CD440239.1|CD440239
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211185238|gb|FL072192.1|FL072192
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         AAGGAGCTGGCCGCGCCGGCGCAGCGCCGCGCGGGCTTGACCCGCCGGACC
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcagAAGGAGCTGGCCGCGCCGGCGCAGCGCCGCGCGGGCTTGACCCGCCGGACC
EST: gi|31354069|gb|CD438426.1|CD438426
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAGCAG                 
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCG--C-A----CA--AGgtccaggtcc ... cc
EST: gi|211187626|gb|FL072195.1|FL072195
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211187638|gb|FL072207.1|FL072207
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211187630|gb|FL072199.1|FL072199
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         AAGGAGCTGGCCGCGCCGGCGCAGCGCCGCGCGGGCTTGACCCGCCGGACC
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcagAAGGAGCTGGCCGCGCCGGCGCAGCGCCGCGCGGGCTTGACCCGCCGGACC
EST: gi|91051662|gb|EB162080.1|EB162080
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211185235|gb|FL072189.1|FL072189
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGGTCCAG                    
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCAC-A-----AGgtccaggtcc ... ccgcc
EST: gi|211187628|gb|FL072197.1|FL072197
EST:     CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAG                         AAGGAGCTGGCCGCGCCGGCGCAGCGCCGCGCGGGCTTGACCCGCCGGACC
genomic: CCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtcc ... ccgccagcagAAGGAGCTGGCCGCGCCGGCGCAGCGCCGCGCGGGCTTGACCCGCCGGACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCGCGCTCGCAGGGTGTTCGACCCTTCGCCCGCGCGCCCTCACGACATGGCCTCCTCCGTCTCCGCCGCCGCCAAGGCCGCCGCGGCGTTCGCGCACAAGgtccaggtccgccctctcccggccggtctccccacttccgtccctccttctctcgcgccacgttactgaccgaccgaccccacttctcttccctttcccgccagcag

- - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -CGCCGCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -GGCCGCCG