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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaatatagctcgcaatcattcccatcgtcctccatggactcatgcatctgtgcggtgctcgcctagcttaattagttggttgcctaactacatgtgcagAGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTCAAAGGGCATGGACGATTGGGGGGATCACGCTGCGACTGCAAGCGCGGCG

Basic information

species Zea mays
transcript GRMZM2G072238_T02
intron # 1
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|50323456|gb|CO518582.1|CO518582
EST:     GGCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTTCT                         AGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTC
genomic: GGCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTTCTgtaaacacct ... acatgtgcagAGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTC
EST: gi|78091301|gb|DV519675.1|DV519675
EST:     GGCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTTCT                         AGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTC
genomic: GGCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTTCTgtaaacacct ... acatgtgcagAGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTC
EST: gi|50323405|gb|CO518531.1|CO518531
EST:     GGCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTTCT                         AGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTC
genomic: GGCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTTCTgtaaacacct ... acatgtgcagAGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTC
EST: gi|74235442|gb|DT643356.1|DT643356
EST:     GCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTTTCT                         AGCGGG-CTAGTCGGAAGAGATCAGGAGCGCCGCAC
genomic: GCGGCCAGGAGAACCACCACATGCCGGAGTCGTGGAGCCAGATGCTT-CTgtaaacacct ... acatgtgcagAGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catctgtgcggtgctcgcctagcttaattagttggttgcctaactacatgtgcagAGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTCAAAGGGCATGGACGATTGGGGGGATCACGCTGCGACTGCAAGCGCGGCG
                                     gcctaac  putative branch site (score: 2)
                       ttaattagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctaatatagctcgcaatcattcccatcgtcctccatggactcatgcatctgtgcggtgctcgcctagcttaattagttggttgcctaactacatgtgcagAGCGGGGCTAGTCGGAGGAGATCAGGAGCGCTGCACCGCAGCTCTCCTGTCAAAGGGCATGGACGATTGGGGGGATCACGCTGCGACTGCAAGCGCGGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA