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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaccaatattaattattatgcgacttaccatctctccagacaaaagataatacataacctgattatttatttatttatttttctttgtaactttacacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAGGAGCAACTTAG

Basic information

species Zea mays
transcript GRMZM2G334225_T01
intron # 5
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|71771389|gb|DR969326.1|DR969326
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211397005|gb|FL238530.1|FL238530
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211397006|gb|FL238531.1|FL238531
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211397001|gb|FL238526.1|FL238526
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211520163|gb|FL238537.1|FL238537
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211397002|gb|FL238527.1|FL238527
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|74233594|gb|DT641508.1|DT641508
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211520159|gb|FL238533.1|FL238533
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGT
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGT
EST: gi|211520162|gb|FL238536.1|FL238536
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211397004|gb|FL238529.1|FL238529
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211520161|gb|FL238535.1|FL238535
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|50333189|gb|CO528315.1|CO528315
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
EST: gi|211520160|gb|FL238534.1|FL238534
EST:     TAAAGAGCCAATAAATTCCAACGTAGAG                         GAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG
genomic: TAAAGAGCCAATAAATTCCAACGTAGAGgtaataacca ... acacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacataacctgattatttatttatttatttttctttgtaactttacacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAGGAGCAACTTAG
                                   ttgtaac  putative branch site (score: 2)
          tgattatttatttatt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataaccaatattaattattatgcgacttaccatctctccagacaaaagataatacataacctgattatttatttatttatttttctttgtaactttacacgtacagGAGCTTCAGCAGGAGATTAAGACGTACCAACACCAGATGGAAGTCTTAAAGGAGCAACTTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA