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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCTGATCATCATCGCAAACAACTGCCCTCCACTTAGGAAGTCTGAGATTGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccaccttcaccctttcaggattatctattgcaagatgtgttttgatttagttatttgctagtatgtaatatattaacacttttttgacttttcag

Basic information

species Zea mays
transcript GRMZM2G044137_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044137_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g41110.2 (Oryza sativa), 5'ss of exon 3
AAGCTGATCATCATCGCAAACAACTGCCCTCCACTTAGGAAGTCTGAGATTGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccaccttcaccctttcag---gattatctattgcaagat-gtgttttgatttagttatttgcta------gtatgtaatata--ttaacacttttttgacttttcag-------------
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AAGCTGATTATCCTTGCAAACAACTGCCCTCCACTCAGGAAGTCTGAGATTGAGTATTACGCCATGTTGGGAAAAGTTAGCGTTCACCATTTCCATGGAAgtaagtttgt-ttcatccttccgaaccatttatgttttgtgtgatagcatctgtattcatctacatgtcacggtttttccgtgatatagtttggtactgtatgtcttactgtgccttcgctttcag
















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|149089950|gb|EE179239.2|EE179239
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|60355557|gb|DN222530.1|DN222530
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|60394375|gb|DN227245.1|DN227245
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|9824981|gb|BE575183.1|BE575183
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|60338522|gb|DN205495.1|DN205495
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|15100298|gb|BI396089.1|BI396089
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|89251915|gb|DY623701.1|DY623701
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|31406277|gb|CD485009.1|CD485009
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|31441073|gb|CD510504.1|CD510504
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|211067924|gb|FL140850.1|FL140850
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|60347030|gb|DN214003.1|DN214003
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|211104174|gb|FL470700.1|FL470700
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|67023955|gb|CO452704.1|CO452704
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|60341097|gb|DN208070.1|DN208070
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|27575973|gb|CA998667.1|CA998667
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|76013092|gb|DT940262.1|DT940262
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|211065202|gb|FL140848.1|FL140848
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|211065201|gb|FL140847.1|FL140847
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|60357629|gb|DN224602.1|DN224602
EST:     TGAGTACTACGCCATGCTGGCCAAAGTTAGCGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
EST: gi|71299866|gb|DR785955.1|DR785955
EST:     TGAGTATTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAA                         ACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC
genomic: TGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccac ... gacttttcagACAATGTTGATCTTGGCACTGCCTGCGGCAAGTACTACAGGGTGTGCTGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGCTGATCATCATCGCAAACAACTGCCCTCCACTTAGGAAGTCTGAGATTGAGTACTACGCCATGCTGGCCAAAGTTAGTGTGCACCATTTCCACGGAAgtaaggccaccttcaccctttcaggattatctattgcaagatgtgttttgatttagttatttgctagtatgtaatatattaacacttttttgacttttcag

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