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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acccaactatgtttgatgaatgccaaaggaaacatattgtcaaatacagatattcaggatagagttcttgttcagttcataacctcatcttgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCCGGACAATGCGCTCAATAAAAATAAGTTCAACAGAAGTTTGTCCGT

Basic information

species Zea mays
transcript GRMZM2G030422_T01
intron # 26
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|83278414|gb|DV942422.1|DV942422
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ---GG-CTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|32908130|gb|CF012943.1|CF012943
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|32865780|gb|CF005462.1|CF005462
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|213187173|gb|FM183060.1|FM183060
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACC---AAG                         A-AGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|14242945|gb|BG840121.2|BG840121
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ---GG-CTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|5608394|gb|AI901971.1|AI901971
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|6056921|gb|AW091326.1|AW091326
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|32866447|gb|CF006129.1|CF006129
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACC---AAG                         A-AGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|37393773|gb|CF634152.1|CF634152
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ---GG-CTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|7162284|gb|AW519891.1|AW519891
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTATCCAAGAAG                         ACAGGGTTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|32908128|gb|CF012941.1|CF012941
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|32935018|gb|CF039830.1|CF039830
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAG                         ACAGGGCTTCAAAGGGTGGTGCGCCTAACCTTGGCAGATGGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
EST: gi|7304552|gb|AW600491.1|AW600491
EST:     TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCGCGAGTCTAACCAAGAAG                         ACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG
genomic: TAAGAAGTTGGAACTGGTAGATTTTTCGTGGCACGAGTCTAACCAAGAAGgtatccttca ... tgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagatattcaggatagagttcttgttcagttcataacctcatcttgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCCGGACAATGCGCTCAATAAAAATAAGTTCAACAGAAGTTTGTCCGT
                               tcataac  putative branch site (score: 2)
                                     cctcatcttgttct  CT-rich tract
                              ttcataa  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acccaactatgtttgatgaatgccaaaggaaacatattgtcaaatacagatattcaggatagagttcttgttcagttcataacctcatcttgttctgcagACAGGGCTTCAAAGGGTGGTGCGACTAACCTTGGCAGATAGGTTCCAAGGGAGCCGGACAATGCGCTCAATAAAAATAAGTTCAACAGAAGTTTGTCCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - atgtttg
- - - - - - - - tgaatgc
- - - - - - - - - - - - - - -aaacata
- - - - - - - - - - - - - - - - - - - - -aaataca