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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgtcactgccctaagtcagcggcgagctccacttaacccgattgatttgttgctgatgacagtgtcgctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACACCGATTTCTGCTGCCGAAGGACTTCGCCCGTTGCTTAACTTCTCGCTTTT

Basic information

species Zea mays
transcript GRMZM2G096585_T05
intron # 11
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|5670934|gb|AI932197.1|AI932197
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACCC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|5650182|gb|AI920542.1|AI920542
EST:     ANCAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32797945|gb|CD950181.1|CD950181
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCAAAGGG
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGG
EST: gi|5608208|gb|AI901875.1|AI901875
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACCC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|4826215|gb|AI667843.1|AI667843
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATG-CAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAA
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAA
EST: gi|60351882|gb|DN218855.1|DN218855
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32867146|gb|CF006828.1|CF006828
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGAT-TTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|33102999|gb|CF062959.1|CF062959
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|37376205|gb|CF624609.1|CF624609
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32802716|gb|CD954952.1|CD954952
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTA
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTA
EST: gi|32911533|gb|CF016345.1|CF016345
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|28422702|gb|CB251966.1|CB251966
EST:     GTTCGCCCAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACCC
genomic: GTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32936492|gb|CF041311.1|CF041311
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|5688792|gb|AI941807.1|AI941807
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32802672|gb|CD954908.1|CD954908
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACACGTTCGCCAAGATGACCAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTA
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTA
EST: gi|32803258|gb|CD955494.1|CD955494
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGA
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGA
EST: gi|4225696|gb|AI396149.1|AI396149
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32911648|gb|CF016460.1|CF016460
EST:     GTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: GTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|5670926|gb|AI932189.1|AI932189
EST:     ANCAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACCC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|67011248|gb|CO439997.1|CO439997
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32788304|gb|CD940540.1|CD940540
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTA
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTA
EST: gi|213174522|gb|FM192247.1|FM192247
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32936333|gb|CF041145.1|CF041145
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|22473281|gb|BU037761.1|BU037761
EST:     ACAAGAAGGACGCCAAATTTCTACAGCAACATGTTCGCCCAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACCC
genomic: ACAAGAAGGACGCCAAATT-CTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|32911730|gb|CF016542.1|CF016542
EST:     GTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: GTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|37384658|gb|CF629420.1|CF629420
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|33092662|gb|CF052656.1|CF052656
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|5525796|gb|AI861689.1|AI861689
EST:     AACAAGAAGGACGCCAAATTTTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACCC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
EST: gi|67012006|gb|CO440755.1|CO440755
EST:     AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAA                         GTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC
genomic: AACAAGAAGGACGCCAAATTCTACAGCAACATGTTCGCCAAGATGACAAAgtaactgtca ... ctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgagctccacttaacccgattgatttgttgctgatgacagtgtcgctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACACCGATTTCTGCTGCCGAAGGACTTCGCCCGTTGCTTAACTTCTCGCTTTT
                                           cgctaat  putative branch site (score: 3)
                  attgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactgtcactgccctaagtcagcggcgagctccacttaacccgattgatttgttgctgatgacagtgtcgctaataacagGTAGCTTTTGGGGTGGAGGATGTTGTGGTGAAGCGAAGGGATTAAAAACACCGATTTCTGCTGCCGAAGGACTTCGCCCGTTGCTTAACTTCTCGCTTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC