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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAGGCCAAGGGAACCAAGATTCATCGCAGGAGTTCCAGCCTAGAAGAATAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattcttctggcaattggataggaatttaggattgattcaatattatagaatgaagtaacacagttataacagtaacttctttacctgaactcctaa...

Basic information

species Zea mays
transcript GRMZM2G096470_T01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G096470_T01 (Zea mays), 5'ss of exon 17
lower sequence: LOC_Os01g61860.2 (Oryza sativa), 5'ss of exon 17
---ACCAGGCCAAGGGAACCAAGATTCATCGCAGGAGTTCCAGCCTAGAAGAATAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattcttctggcaattggatag--gaatttaggattgattcaatattatagaatgaagtaacacagttataacagtaacttctttacctgaactcctaa
   ||| ||||||| ||||||||||||||| |||||||| || |||||||||||||| |||||||| || |||||   ||| || ||||| |||||||||||||||  || |  ||| || |||||    | |||         |  | |   |   |||    |   |   | | || | | |        | |||   ||   
ATCACCTGGCCAAGTGAACCAAGATTCATCACAGGAGTTTCAACCTAGAAGAATAAGTTTGCTTGCTCCGTTTTC---CCTTGGCTGGCGTGACAAGAACAAGgtaatttttattggaaagtggattactggattcctttcctgtgtagtgacaataaatctctttctagtctaaaaaaactcatagtccagcatgaggacca--
















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|101398466|gb|EB821106.1|EB821106
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
EST: gi|4647498|gb|AI622573.1|AI622573
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACAANCGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
EST: gi|67021387|gb|CO450136.1|CO450136
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACANACGGGTA-GCTCAATAATAG
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGG-TAAGCTCAATAATAG
EST: gi|33098365|gb|CF058325.1|CF058325
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
EST: gi|67018060|gb|CO446809.1|CO446809
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
EST: gi|86468680|gb|DY235050.1|DY235050
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTTTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
EST: gi|83278212|gb|DV942220.1|DV942220
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
EST: gi|78111976|gb|DV530372.1|DV530372
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
EST: gi|78074754|gb|DV503188.1|DV503188
EST:     TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAG                         GGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC
genomic: TAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattctt ... tttcgcatagGGCAAGCAGAACGGCTCTGATGAGTCAACAAACGGTAAGCTCAATAATAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCAGGCCAAGGGAACCAAGATTCATCGCAGGAGTTCCAGCCTAGAAGAATAAGCTTGCTTGCCCCATTTTCTTCCCTCGGATGGCGAGACAAGAACAAGgtatattcttctggcaattggataggaatttaggattgattcaatattatagaatgaagtaacacagttataacagtaacttctttacctgaactcctaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC