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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACTGTAAGTGGCGCCAACAACGAGGCAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgatagtttatctagcaatttctgcaattcaatagtatcagccaaagcagtcttcttttcatccatcccccagaaggccagaatgattatattttttgtgacag

Basic information

species Zea mays
transcript GRMZM2G044237_T03
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044237_T03 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 5'ss of exon 13
GTTACTGTAAGTGGCGCCAACAACGAGGCAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgatagtttatctagcaatttctgcaattcaatagtatcagccaaagcagtcttcttttcatccatcccccagaaggccagaatgattatatt-ttttgtgacag
|||||||||  ||| ||||| || ||||| ||||| |||||||||||||||||||| |||||||| ||  ||||||||||||| |  | ||||| |    || || ||| | | |  ||    ||      ||  | ||| |   ||  |  ||||||| ||| || |  ||| ||| |||| |  |||
GTTACTGTAGCTGGTGCCAATAATGAGGCTGAAGCAGCTAAAATTGCTCGTTCAGTGGCATCTTCCTCCCTGGTTAAAgtatgatact-gtttagcagcaaaattttgctaattaggag----aggattgacacccctctgtcattcgttagcccagaaagcctgagttgttaaattattttttatcag
















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|32934567|gb|CF039379.1|CF039379
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|32835096|gb|CD974774.1|CD974774
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|78092274|gb|DV520648.1|DV520648
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|148938789|gb|EC883127.2|EC883127
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|32928445|gb|CF033257.1|CF033257
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGAACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|76917242|gb|DV166726.1|DV166726
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|166482515|gb|EG042058.1|EG042058
EST:     CTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|211349360|gb|FL434476.1|FL434476
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
EST: gi|32833027|gb|CD972705.1|CD972705
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTG
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTG
EST: gi|78027443|gb|DV495830.1|DV495830
EST:     CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAA                         GCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT
genomic: CAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgat ... tttgtgacagGCCGCTATATTTGGAAGAGACCCAAATTGGGGACGAATTGCTTGCTCAGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTACTGTAAGTGGCGCCAACAACGAGGCAGAAGCTGCTAAAATTGCTCGTTCAGTAGCATCTTCTTCTTTGGTTAAAgtatgttgatagtttatctagcaatttctgcaattcaatagtatcagccaaagcagtcttcttttcatccatcccccagaaggccagaatgattatattttttgtgacag

- - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - -  GCTGCT