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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgtctgtctgagcttaaaccagttttcttgtcctgatgtctgatcccattcgtttgtgtgtttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTTCTAACTG

Basic information

species Zea mays
transcript GRMZM2G337425_T01
intron # 2
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|78109926|gb|DV528341.1|DV528341
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|50332883|gb|CO528009.1|CO528009
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|89755993|gb|DY686200.1|DY686200
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|148931116|gb|EC873780.2|EC873780
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|211089296|gb|FL241969.1|FL241969
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|78083979|gb|DV512372.1|DV512372
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|91048354|gb|EB158772.1|EB158772
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|91876517|gb|EB406474.1|EB406474
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|88756244|gb|DY540385.1|DY540385
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|211086849|gb|FL241965.1|FL241965
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGA-TTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|211089297|gb|FL241970.1|FL241970
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|211089293|gb|FL241966.1|FL241966
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|86467325|gb|DY233695.1|DY233695
EST:     ACATCGAGGCCGGGGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|76288198|gb|DV027766.1|DV027766
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|211089295|gb|FL241968.1|FL241968
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|211539417|gb|FK948581.1|FK948581
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|78085073|gb|DV513466.1|DV513466
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|101389965|gb|EB816914.1|EB816914
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
EST: gi|211089294|gb|FL241967.1|FL241967
EST:     ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATG                         CGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT
genomic: ACATCGAGGCCGGTGGCTTCCCAGGGTTCGCTCCCGAGCGCCGCGCCATGgtgagtgtct ... ttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccagttttcttgtcctgatgtctgatcccattcgtttgtgtgtttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTTCTAACTG
      ttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgtctgtctgagcttaaaccagttttcttgtcctgatgtctgatcccattcgtttgtgtgtttgcgtatagCGAATTCATGCAGGGAGCAGGCCGGTGAATAGCAATTCCTTGGCTTTTCTTCTAACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG