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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaatactgacttgtcccaaggtgtggtcgcttgaaaagtatcttattatcatcaatcgtgtgggctgttagaagtcatgttatttgtgatgtcac...

Basic information

species Zea mays
transcript GRMZM2G337425_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G337425_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g16570.2 (Oryza sativa), 5'ss of exon 7
TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaatactgacttg--tcccaaggtgtggtcgcttgaaaagtatcttattatcatcaatcgtgtgggctgttagaagtcatgttatttgtgatgtcac
|||||| |||||||| | ||| |||||||| ||||  || ||||||||||||||  |||||||||||| ||  |   |||  ||  |   |||||  | |||| | | | ||   | |  | |||   | ||  || ||  ||   | |      
TGATGGACCATCTCAACCATCTGTTTCTTCTACTGAATCTGGCAATGAGgtaataaataaatactgacatgattatgaagaggttattctttgaatggcatct-actgttattgtttgcataggcatgttgacatcctggcatgactaag-----
















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|78083978|gb|DV512371.1|DV512371
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|91056515|gb|EB166933.1|EB166933
EST:     CGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: CGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|91048354|gb|EB158772.1|EB158772
EST:     GGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCCGGCA-TGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCCAGCAA-CCTTCAGAAGATGAA
genomic: GGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCC-GGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACC-AGCAAACCTTCAGAGGATGAA
EST: gi|78083979|gb|DV512372.1|DV512372
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGTTTTAAA-GCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|78109926|gb|DV528341.1|DV528341
EST:     GGGCCATCTCAGCTATCGGGTTCTTCAACTGGGGTC-GGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAA
genomic: GGGCCATCTCAGCTATCGGTTTCTTCAACTGGG-TCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAA
EST: gi|18164717|gb|BM334556.1|BM334556
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|148928861|gb|EC873779.2|EC873779
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|18166650|gb|BM336489.1|BM336489
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|71760470|gb|DR958407.1|DR958407
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|86467324|gb|DY233694.1|DY233694
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|76288197|gb|DV027765.1|DV027765
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
EST: gi|78085072|gb|DV513465.1|DV513465
EST:     TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGAAA                         AGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC
genomic: TGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaata ... ttgcaggaaaAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGATGAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGGTAAttgataaatactgacttgtcccaaggtgtggtcgcttgaaaagtatcttattatcatcaatcgtgtgggctgttagaagtcatgttatttgtgatgtcac

- - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaagta