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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatatcttctcgtagcttcttcgttcagtccttgtcatgcacgtgaagttgctcgggcaacagaatacttactgatcactgccactcatctccctctttgcattgtgacgcgcgcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAACTGGGACGCGCCTGTTGCCAA

Basic information

species Zea mays
transcript GRMZM5G836250_T02
intron # 6
splice site 3'
intron type U2

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|149085230|gb|EE174737.2|EE174737
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|149056940|gb|EE156494.2|EE156494
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGGAGATCT
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCT
EST: gi|50327741|gb|CO522867.1|CO522867
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|89759142|gb|DY688055.1|DY688055
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCCACGAAGGGGACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|149088446|gb|EE177549.2|EE177549
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTNCA-CGAAGGGAACGCCAAGAA
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGT-CAACGAAGGGAACGCCAAGAA
EST: gi|149095912|gb|EE181574.2|EE181574
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|32838746|gb|CD978427.1|CD978427
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|71770843|gb|DR968780.1|DR968780
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCTACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|148932776|gb|EE285437.2|EE285437
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAANGGGA-CGCCAAGAA
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAA-GGGAACGCCAAGAA
EST: gi|78106829|gb|DV525247.1|DV525247
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|32920564|gb|CF025376.1|CF025376
EST:     CGCTCGACCCTTCACTTGGCGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|74244032|gb|DT651946.1|DT651946
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
EST: gi|71757120|gb|DR955057.1|DR955057
EST:     CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG                         ATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC
genomic: CGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatctt ... gcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttatatcttctcgtagcttcttcgttcagtccttgtcatgcacgtgaagttgctcgggcaacagaatacttactgatcactgccactcatctccctctttgcattgtgacgcgcgcgcgcgcagATACCTAAGAAGGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAGAACTGGGACGCGCCTGTTGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC