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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACTTGACGATTTTGACTTTGAGCAGAATGAAGCTACACCCATTAAGGATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacattttattatttctcaagttaatgttatatgatttacagtttttacctattttaaagtctgtattcactgttttctgaacaatgactacttaacca...

Basic information

species Zea mays
transcript GRMZM2G114172_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G114172_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g65450.1 (Oryza sativa), 5'ss of exon 2
GTTACTTGACGATTTTGACTTTGAGCAGAATGAAGCTACACCCATTAAGGATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacattttattatt-tctcaagttaatgttatatgatttacagtttttacctattttaaagtctgtattcactgttttctgaacaatgactactt-aacca-
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GATACTCAATGATTATGAAATAGGCCAGAATGAAGTTACTGCTATCAAGGATAAAGATGTCTACAAGCAAAAACTAAAACGGCGTGCAAGTCAATATAAGgtatattcccgtgtcattttcgtttcctgtcatatgcttcttccttatccatgcttttatggttc---cacaatatcctgtttgttctgacagcctgagccac
















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|116813073|gb|EC855467.1|EC855467
EST:     ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGA
genomic: ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGA
EST: gi|78090560|gb|DV518934.1|DV518934
EST:     AAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
genomic: AAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
EST: gi|78106134|gb|DV524552.1|DV524552
EST:     ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
genomic: ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
EST: gi|71772417|gb|DR970350.1|DR970350
EST:     ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
genomic: ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
EST: gi|31405818|gb|CD484550.1|CD484550
EST:     ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
genomic: ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
EST: gi|149088593|gb|EE177708.2|EE177708
EST:     ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
genomic: ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
EST: gi|32845859|gb|CD985540.1|CD985540
EST:     ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
genomic: ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
EST: gi|78090561|gb|DV518935.1|DV518935
EST:     ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAG                         ATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC
genomic: ATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacatttta ... gttcttatagATCAAGCTCTTGAATCCGTGCCGCAAAGGAAAGAAGCTGCTTGTCCTTGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTACTTGACGATTTTGACTTTGAGCAGAATGAAGCTACACCCATTAAGGATAAAGATGTCTACAAGCAAAAATTAAAGCGACGCGCAAGTCGTTATAAGgtacattttattatttctcaagttaatgttatatgatttacagtttttacctattttaaagtctgtattcactgttttctgaacaatgactacttaacca

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA