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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCTGGAGCTCATCGAGAAGCCGGACCGGAGCCTGGCGCTGCTGGATGAGTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcctcacttctgtgcgtttgaaattactcgggtttagtattttttaagcttaggaattgacgccatgcaattagttataaattttattagcca...

Basic information

species Zea mays
transcript GRMZM2G158024_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158024_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os05g49220.1 (Oryza sativa), 5'ss of exon 1
CGCCTGGAGCTCATCGAGAAGCCGGACCGGAGCCTGGCGCTGCTGGATGAGTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcctcacttctgtgcgtttgaaatt---------actcgggtttagta-ttttttaagcttagga------attgacgccatgcaattagttataaattttattagcca--------------------------------
|| |||||||||||||||||||||||||||||||||   ||||| || ||||||||||||||||| || |||||||||| ||| ||||| || || |||||| ||||| ||  ||||||||   || |  |          | || |   ||  |   |||| || ||| ||      | |||  | || |      | |  | ||||    |                                   
CGTCTGGAGCTCATCGAGAAGCCGGACCGGAGCCTGTGTCTGCTCGACGAGTACGAGTCGGAGGAGCTAGGCACCTCTCATTGTGCCAACCACCGCAGCGgtgaggcttctagcttctgtgaaattcacctcttcatttcgattctgaaataacagcctttttagtttatgatctccaaatgaaactattctgcagatgaatattttttcatgttgttgtaatattgatataccatgtgtttgcacag
















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|211496171|gb|FL037712.1|FL037712
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496169|gb|FL037710.1|FL037710
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496170|gb|FL037711.1|FL037711
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|149086134|gb|EE175674.2|EE175674
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|76287840|gb|DV027408.1|DV027408
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|74240633|gb|DT648547.1|DT648547
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496176|gb|FL037717.1|FL037717
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCAC
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCAC
EST: gi|211496166|gb|FL037707.1|FL037707
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496165|gb|FL037706.1|FL037706
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496172|gb|FL037713.1|FL037713
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTMTTGGGGAAGCCAAATGTYGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496174|gb|FL037715.1|FL037715
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATT
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATT
EST: gi|211054591|gb|FL410427.1|FL410427
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCCTGGAGCTCATCGAGAAGCCGGACCGGAGCCTGGCGCTGCTGGATGAGTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcctcacttctgtgcgtttgaaattactcgggtttagtattttttaagcttaggaattgacgccatgcaattagttataaattttattagcca

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