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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtatcaccggcctctcatgttaacaaaagcgttacagaattaatataattccacctccaagttgagtatagtctcatctcagtttttaaaatacctgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTACTTCTGCTACTACAAGTCGACCCCCAAGAAGGAGAAGAACGTGGAGCTGC

Basic information

species Zea mays
transcript GRMZM2G157675_T01
intron # 5
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|14242996|gb|BG840173.2|BG840173
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTNTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|211162570|gb|FL132729.1|FL132729
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|211162573|gb|FL132732.1|FL132732
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGSGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|28188031|gb|CB179641.1|CB179641
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCATCCAGCTGATCCTCTAT
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|211388914|gb|FL454573.1|FL454573
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|166537343|gb|EG253046.1|EG253046
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTC
EST: gi|211162572|gb|FL132731.1|FL132731
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCAAACGCCCTGGGCGCATTCTTCGGACTCATCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|28566554|gb|CB278202.1|CB278202
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCATCCAGCTGATCCTCTAT
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|148934526|gb|EC878568.2|EC878568
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|17932131|gb|BM269091.1|BM269091
EST:     GCTGCTGATGGACGGCATACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|37361184|gb|CF602473.1|CF602473
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCATCCAGCTGATCCTCTAT
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|211148276|gb|FL467068.1|FL467068
EST:     GCTGCTGCTGGACGGCCTACGCGYTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|93014839|gb|EB640359.1|EB640359
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|24462465|gb|BM659996.1|BM659996
EST:     GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCATCCAGCTGATCCTCTAT
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
EST: gi|211124352|gb|FL444992.1|FL444992
EST:     GCTGCTGCTGGACGGCCTACGCGHTMATCCGCTTCGACCTCTACGTCACG                         ATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC
genomic: GCTGCTGCTGGACGGCCTACGCGCTCATCCGCTTCGACCTCTACGTCACGgtcagtatca ... tgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccacctccaagttgagtatagtctcatctcagtttttaaaatacctgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTACTTCTGCTACTACAAGTCGACCCCCAAGAAGGAGAAGAACGTGGAGCTGC
                            tcagtttttaaaata  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtatcaccggcctctcatgttaacaaaagcgttacagaattaatataattccacctccaagttgagtatagtctcatctcagtttttaaaatacctgcaatgcagATCCCGAACGCCCTGGGCGCATTCTTCGGCCTCGTCCAGCTGATCCTCTACTTCTGCTACTACAAGTCGACCCCCAAGAAGGAGAAGAACGTGGAGCTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC