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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggctgcaggctgcatctattccaattttgaactgaagaaactggtttcttttaacttactagctatcgttatttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTTCTCATGTGATGCTATGCTTTATATATTAGGGCGACGATGGAGTATCTAT

Basic information

species Zea mays
transcript GRMZM2G431350_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|211420227|gb|FL011433.1|FL011433
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
EST: gi|7304466|gb|AW600405.1|AW600405
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAA
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAA
EST: gi|22819983|gb|BU500073.1|BU500073
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGA
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGA
EST: gi|22545780|gb|BU098154.1|BU098154
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
EST: gi|30591528|gb|CD052418.1|CD052418
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
EST: gi|211270446|gb|FL011426.1|FL011426
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
EST: gi|71302986|gb|DR787604.1|DR787604
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
EST: gi|6020321|gb|AW065249.1|AW065249
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAG
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAG
EST: gi|37622066|gb|CF675119.1|CF675119
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
EST: gi|30591531|gb|CD052420.1|CD052420
EST:     CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT
EST: gi|211477577|gb|FL100777.1|FL100777
EST:     CTGAAAAGGTGTCTGGTCATGGATTGGAGGGTGCTTCATCAGCTGAGCAG                         ACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTGGCGAAGTCTCTT
genomic: CTGAAAAGGTGTCTGGACATGGATTGGAGGGTGCTTCATCAGCTGAGCAGgtaggctgca ... ttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaactgaagaaactggtttcttttaacttactagctatcgttatttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTTCTCATGTGATGCTATGCTTTATATATTAGGGCGACGATGGAGTATCTAT
                         aacttac  putative branch site (score: 2)
                                            tttgctt  putative PPT
                 tttcttttaactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggctgcaggctgcatctattccaattttgaactgaagaaactggtttcttttaacttactagctatcgttatttgcttgcagACTTTAGTCAACGCCCTAACGCAAGCAAGAGAGCATTTTGCGAAGTCTCTTCTCATGTGATGCTATGCTTTATATATTAGGGCGACGATGGAGTATCTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA