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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagggagtgattcggccctccgcttttcttggcgtgttcgcggttcactgccagccagccagccagccagccctaacgcgccgtcgtcatcgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGCTACCTGTTCGCGCGCAAGTTCTACCCAGAGGCGCTGGACAACCTGCTGA

Basic information

species Zea mays
transcript GRMZM2G099255_T01
intron # 10
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|113702130|gb|EE679634.1|EE679634
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|78105512|gb|DV523930.1|DV523930
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|78090001|gb|DV518375.1|DV518375
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|78024858|gb|DV493245.1|DV493245
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211326914|gb|FL457046.1|FL457046
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|76018436|gb|DT945606.1|DT945606
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|101398462|gb|EB821104.1|EB821104
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|86474172|gb|DY240542.1|DY240542
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|89252603|gb|DY624389.1|DY624389
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|78093093|gb|DV521467.1|DV521467
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211295436|gb|FL439725.1|FL439725
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCSCARAGGAGSCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|45847177|gb|CN071120.1|CN071120
EST:     ATCGCGTCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: ATCGCGTCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211482405|gb|FK951270.1|FK951270
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|86471048|gb|DY237418.1|DY237418
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|71774867|gb|DR972745.1|DR972745
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|101399747|gb|EB821720.1|EB821720
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTG
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGG-CCGTGCGTGTGGAACGGCATGAAGCGGCCCTG
EST: gi|78077573|gb|DV506007.1|DV506007
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|101388829|gb|EB816396.1|EB816396
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|148961000|gb|EE011700.2|EE011700
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|37388428|gb|CF631423.1|CF631423
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|71767366|gb|DR965303.1|DR965303
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211030594|gb|FL321485.1|FL321485
EST:     GAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: GAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|149106921|gb|EE188822.2|EE188822
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211485273|gb|FK951273.1|FK951273
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|71442672|gb|DR823722.1|DR823722
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|37394285|gb|CF634415.1|CF634415
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|14717652|gb|BI245302.1|BI245302
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|86469460|gb|DY235830.1|DY235830
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|149082889|gb|EE172120.2|EE172120
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|24768422|gb|CA403551.1|CA403551
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGCCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|50337694|gb|CO532820.1|CO532820
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|91878461|gb|EB408418.1|EB408418
EST:     AGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: AGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|76912822|gb|DV164897.1|DV164897
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|148963210|gb|EE014187.2|EE014187
EST:     TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAG                         CATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATCGACGAGAGCGTCCACGTTAGCAGCAACGCGAAGgtaagaggga ... cgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgccagccagccagccagccagccctaacgcgccgtcgtcatcgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGCTACCTGTTCGCGCGCAAGTTCTACCCAGAGGCGCTGGACAACCTGCTGA
                         ccctaac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagagggagtgattcggccctccgcttttcttggcgtgttcgcggttcactgccagccagccagccagccagccctaacgcgccgtcgtcatcgttgtgcagCATGTCGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGCTACCTGTTCGCGCGCAAGTTCTACCCAGAGGCGCTGGACAACCTGCTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA