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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatctttatgttctctttttctcatcatgttattatatgatcagtgtcaattagtatctttgtaagtttgacatgatgcacatgttatgtattgatag

Basic information

species Zea mays
transcript GRMZM2G381933_T04
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G381933_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g15490.3 (Oryza sativa), 5'ss of exon 2
ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatctttatgttctctttttctcatcatgtta---ttatatgatcagtgtcaattagtatcttt-gtaagtttgacatgatgcacatgttatgtattgatag
 |||||||||||||||||||||||||||||||||||||||||||| |||| |||||||||  ||||| || ||  |||| ||     | |||| | |||| |  ||  |    || | |||||| ||| |||    ||| ||| |||  ||||
GTTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACAgtaa-tatctttataatctctcttgcttgtcatttttcttctgtatgttaagtgacggttttttctattagcaagtttaacaagatatgaatgctatatatcaatag
















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|211136283|gb|FL006475.1|FL006475
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTTT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
EST: gi|211136285|gb|FL006477.1|FL006477
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTTT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
EST: gi|6536592|gb|AW224905.1|AW224905
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTA
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTA
EST: gi|211136284|gb|FL006476.1|FL006476
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTTT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
EST: gi|74242522|gb|DT650436.1|DT650436
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
EST: gi|31353159|gb|CD437516.1|CD437516
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
EST: gi|211136280|gb|FL006472.1|FL006472
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTTT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
EST: gi|211135349|gb|FL006468.1|FL006468
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTTT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT
EST: gi|211135352|gb|FL006471.1|FL006471
EST:     ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACT                         GTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTTT
genomic: ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatct ... gtattgatagGTGCTCCTGCATTTGATTCGAGCTGGTTACTACCTTTACAAGAAGGACTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTGAGGAAGTTGCCTTCAGCTTTAATGGTGGGAAGGATTCAACTgtaaatatctttatgttctctttttctcatcatgttattatatgatcagtgtcaattagtatctttgtaagtttgacatgatgcacatgttatgtattgatag

- - - - - - - -  TCAGCT
- - - - - - - - - - - - -  TGGTGG