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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgtttttccgcactgtcttatattgctggatctggttgccaacttgtagcattgtactcatagtcccatggaagttttagttgggtggacacagcac...

Basic information

species Zea mays
transcript GRMZM2G078033_T03
intron # 9
splice site 5'
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|31355509|gb|CD439866.1|CD439866
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|14190990|gb|BG833220.1|BG833220
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|76937547|gb|DV175182.1|DV175182
EST:     CAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|31360223|gb|CD444580.1|CD444580
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACGTGAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|94472425|gb|EB701383.1|EB701383
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|8367728|gb|BE050673.1|BE050673
EST:     ATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: ATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|33942630|gb|CF349230.1|CF349230
EST:     CCTGTTATTGAGGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|91867906|gb|EB399846.1|EB399846
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|211130755|gb|FL240378.1|FL240378
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|67029948|gb|CO458697.1|CO458697
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|67021466|gb|CO450215.1|CO450215
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|149011847|gb|EE042454.2|EE042454
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTACCCAAAG                         GGTCACCGAAATTACCCGCCAGCACATTGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|14190983|gb|BG833213.1|BG833213
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
EST: gi|67012438|gb|CO441187.1|CO441187
EST:     CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG                         GGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA
genomic: CCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgttttt ... tggtcttcagGGTCACCGAAATTACCCGCCAGCACAATGGAGTCAAGGTCACTACTGAAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAGgtttgtttttccgcactgtcttatattgctggatctggttgccaacttgtagcattgtactcatagtcccatggaagttttagttgggtggacacagcac

- - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC