Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcgaggtctcggtcgagcagtgtgtgctgtgtgccaatcgttgtcatggtggctgatgacgtacgctcgtgtgtgtgtgtgtgtgtgtgcatgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACCAAGGGGTGGAGGGCGGCCGACCTGGGGTACGTGGCCATCCTCCCGTCGC

Basic information

species Zea mays
transcript GRMZM2G066578_T02
intron # 1
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|148930973|gb|EC873493.2|EC873493
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|76928666|gb|DV171728.1|DV171728
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|149101383|gb|EE187500.2|EE187500
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|89757801|gb|DY687247.1|DY687247
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|78076046|gb|DV504480.1|DV504480
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|78091933|gb|DV520307.1|DV520307
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|148956804|gb|EC902698.2|EC902698
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|211418299|gb|FL156338.1|FL156338
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCAAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|211418301|gb|FL156340.1|FL156340
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCAAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|76018388|gb|DT945558.1|DT945558
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|148999701|gb|EE036698.2|EE036698
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
EST: gi|93015094|gb|EB640614.1|EB640614
EST:     ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAG                         TACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC
genomic: ACCCCGGCCTCTTCACCGAGTGGCCGTGGAAGAAGCTCGGCAACTTCAAGgtagctcccg ... atgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtggctgatgacgtacgctcgtgtgtgtgtgtgtgtgtgtgcatgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACCAAGGGGTGGAGGGCGGCCGACCTGGGGTACGTGGCCATCCTCCCGTCGC
     ggctgat  putative branch site (score: 4)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcgaggtctcggtcgagcagtgtgtgctgtgtgccaatcgttgtcatggtggctgatgacgtacgctcgtgtgtgtgtgtgtgtgtgtgcatgcacgcagTACCTGCTGCTGGCGCCGTGGGTGGCGCACGGCGGCTACCTAGCGGCGACCAAGGGGTGGAGGGCGGCCGACCTGGGGTACGTGGCCATCCTCCCGTCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG