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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcatgttctgcttcttcagctttacgcggcttggagatgctgtgtaccgatgatcctggagatgctgtgtaactgtatcattttttggctgttg...

Basic information

species Zea mays
transcript GRMZM5G852968_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G852968_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g36450.1 (Oryza sativa), 5'ss of exon 2
TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcatgttctgcttcttcagctttacgcggcttggagatgctgtgtaccgatgatcctggagatgctgtgta---actgtatcattttttggctgttg
|||||||| ||||||||||||||||||||||||    | ||  | || |||          ||   ||    | | ||||| |||| |   | |||| ||  |    | | |     |  |   |  |  
TTCTTCGTTGGAGGCAACTGGAAGTGCgtaagtatccgctcctcctcatcaatcaacttttgc--agacgcacggggtacctatgagcagagcgatgatggatggagattctgctgctgctgcaccttc-
















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|71757354|gb|DR955291.1|DR955291
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|101387332|gb|EB815682.1|EB815682
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|76014692|gb|DT941862.1|DT941862
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|149089024|gb|EE178175.2|EE178175
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|50337624|gb|CO532750.1|CO532750
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|78089192|gb|DV517576.1|DV517576
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|71439314|gb|DR820364.1|DR820364
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|148949372|gb|EC894828.2|EC894828
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|148990724|gb|EE032131.2|EE032131
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|211138817|gb|FL315878.1|FL315878
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|149101112|gb|EE187218.2|EE187218
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|13126490|gb|BG317060.1|BG317060
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|71301510|gb|DR786796.1|DR786796
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|71436978|gb|DR818028.1|DR818028
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|148987083|gb|EE030908.2|EE030908
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|148945255|gb|EC890464.2|EC890464
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|91877369|gb|EB407326.1|EB407326
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|148942891|gb|EC887934.2|EC887934
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|91049452|gb|EB159870.1|EB159870
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|78089320|gb|DV517694.1|DV517694
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|149111298|gb|EE294796.2|EE294796
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|76011527|gb|DT938697.1|DT938697
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
EST: gi|71319071|gb|DR796286.1|DR796286
EST:     TTCTTCGTCGGAGGCAACTGGAAGTGC                         AACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT
genomic: TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcat ... tcttattcagAACGGAACAAAGGACTCCGTTAGCAAGCTTGTCTCTGAACTGAATGCTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCTTCGTCGGAGGCAACTGGAAGTGCgtaagtgcatgttctgcttcttcagctttacgcggcttggagatgctgtgtaccgatgatcctggagatgctgtgtaactgtatcattttttggctgttg

- - - - - - - - - TGGAAG