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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATCATGGCAGCAACTCCTCCTATCCCTGGCACCCGCAGTGCCGCCAGGCCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcgcctttgcacccccaccgcatcagccagcctagcttgtcgatcgatcgaccgacagtacgtccctcacccag

Basic information

species Zea mays
transcript GRMZM2G095141_T02
intron # 3
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|211335900|gb|FL358434.1|FL358434
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGGCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|71301051|gb|DR786555.1|DR786555
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|211512679|gb|FL346133.1|FL346133
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|78075611|gb|DV504045.1|DV504045
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|149081591|gb|EE170732.2|EE170732
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|148941574|gb|EC886510.2|EC886510
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|149100624|gb|EE186712.2|EE186712
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|78078033|gb|DV506448.1|DV506448
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|71447021|gb|DR828071.1|DR828071
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|148951347|gb|EC897061.2|EC897061
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|148959199|gb|EE010648.2|EE010648
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|91872713|gb|EB402670.1|EB402670
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|148951196|gb|EC896884.2|EC896884
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
EST: gi|149076596|gb|EE165231.2|EE165231
EST:     CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAG                         GTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG
genomic: CCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcg ... cctcacccagGTCATGTGGGAGCTGCCGAGGTTCGTGAAGATAGTGGAGGTGGGGCCTCGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCATCATGGCAGCAACTCCTCCTATCCCTGGCACCCGCAGTGCCGCCAGGCCGCCGATCCATCACGCGATGCAGTGGAGCTTAGAGATCTCCCTCGCAAGgtatttttcgcctttgcacccccaccgcatcagccagcctagcttgtcgatcgatcgaccgacagtacgtccctcacccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC