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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCCCCAAGTAGCCGTTTTGGGACTCCAGAGGACCTAAAATCTCTTATTGATAAAGCGCATGAGCTTGGCTTGCTAGTGCTTATGGATATTGTTCATAGgtatgtctgttcgggtattctattgtctcgttggatgccttatttctatcatgcagtagaattgcaccattgatttttctttgttagatgtatgaactca...

Basic information

species Zea mays
transcript GRMZM2G073054_T02
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073054_T02 (Zea mays), 5'ss of exon 11
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 5'ss of exon 11
TTGCCCCAAGTAGCCGTTTTGGGACTCCAGAGGACCTAAAATCTCTTATTGATAAAGCGCATGAGCTTGGCTTGCTAGTGCTTATGGATATTGTTCATAGgta-tgtctgttcgggtattctattgtctcgttggatgccttatttctatcatgcagtaga-attgcaccattgatttttctttgttagatgtatgaactca
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TTGCCCCAAGCAGTCGCTGTGGGACCCCAGAGGAACTAAAATCACTGATAGATAGAGCTCACGAGTTAGGCCTGGTAGTTCTGATGGATATCGTTCATAGgtagtgaaggttta--catgaaagcaaacaatgagat-ccaccttttggtcatttacaagtcattgaatcttccgactctctaacctgtgcag---------

upper sequence: GRMZM2G073054_T02 (Zea mays), 5'ss of exon 11
lower sequence: Vv08s0007g03750.t01 (Vitis vinifera), 5'ss of exon 11
TTGCCCCAAGTAGCCGTTTTGGGACTCCAGAGGACCTAAAATCTCTTATTGATAAAGCGCATGAGCTTGGCTTGCTAGTGCTTATGGATATTGTTCATAGgta-tgtctgttcgggtattctattgtctcgttggatgccttatttctatcatgcagtagaattgcaccattgatttttctttgttagatgtatgaactca
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TTGCACCCAGTAGTCGCTGTGGAACTCCTGATGATCTTAAGTCTTTGATAGATAAAGCTCATGAGCTAGGTTTGCTTGTTCTCATGGATATTGTGCATAGgtaatgactaattttttaga-tgcaaattattggaataatttgtcaagcacttgatattggttttcaagaaatatatcctttagaggagtttctatagtaa
















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|67035192|gb|CO463725.1|CO463725
EST:     AGCTTGGCTTTCCAGTGCTTATGGATATTGTTCATAG                         TCATTCATCAAATAATACCTTGGATGGTTTGAATGGTTTCGATGGCACCGA
genomic: AGCTTGGCTTGCTAGTGCTTATGGATATTGTTCATAGgtatgtctgt ... tatcctgcagTCATTCATCAAATAATACCTTGGATGGTTTGAATGGTTTCGATGGCACCGA
EST: gi|67022129|gb|CO450878.1|CO450878
EST:     GATAAAGCGCATGAGCTTGGCTTGCTAGTGCTTATGGATATTGTTCATAG                         TCATTCATCAAATAATACCTTGCATGGTTTGAATGGTTTCNATGGCACCGA
genomic: GATAAAGCGCATGAGCTTGGCTTGCTAGTGCTTATGGATATTGTTCATAGgtatgtctgt ... tatcctgcagTCATTCATCAAATAATACCTTGGATGGTTTGAATGGTTTCGATGGCACCGA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCCCCAAGTAGCCGTTTTGGGACTCCAGAGGACCTAAAATCTCTTATTGATAAAGCGCATGAGCTTGGCTTGCTAGTGCTTATGGATATTGTTCATAGgtatgtctgttcgggtattctattgtctcgttggatgccttatttctatcatgcagtagaattgcaccattgatttttctttgttagatgtatgaactca

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