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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttggtacattagaatgcaatgcttcaacggtttctttatatatgtttttaaagagattaagatatgctttctgttctgtgtcttcatcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGGCAAAGGAGATGCGGTATTTATGGTGTCAGCTCCTCATTACTGGTGCATA

Basic information

species Zea mays
transcript GRMZM2G091265_T05
intron # 4
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|148933222|gb|EC876874.2|EC876874
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAAAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|78091413|gb|DV519787.1|DV519787
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|60349186|gb|DN216159.1|DN216159
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|78026942|gb|DV495329.1|DV495329
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|94476085|gb|EB705043.1|EB705043
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCC
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCC
EST: gi|60344966|gb|DN211939.1|DN211939
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|44682094|gb|CK787142.1|CK787142
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|60344681|gb|DN211654.1|DN211654
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|71434212|gb|DR815262.1|DR815262
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
EST: gi|60338381|gb|DN205354.1|DN205354
EST:     CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAG                         ATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG
genomic: CAAAGAGACCCTCAAATTCATACTCAGTTTCACCAAACTCAGATTCTAAGgtgtgtgctt ... tcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttttaaagagattaagatatgctttctgttctgtgtcttcatcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGGCAAAGGAGATGCGGTATTTATGGTGTCAGCTCCTCATTACTGGTGCATA
                                       tcttcatc  CT-rich tract
     tttaaagagattaa  TA-rich tract
















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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcttggtacattagaatgcaatgcttcaacggtttctttatatatgtttttaaagagattaagatatgctttctgttctgtgtcttcatcatctgtagATTGAATCAAAGAGGCGCAAGAGATAAATGCTGCGGCAGAAGCACCCCTGGCAAAGGAGATGCGGTATTTATGGTGTCAGCTCCTCATTACTGGTGCATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC