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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactttttccctgaccttttgatgccttgctagtatcaatttagtatttctatttatgatagtgctagaagggcgagtagtcttcaaagcttgatctagtaatactctaacaccag

Basic information

species Zea mays
transcript GRMZM2G028096_T03
intron # 12
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|17929792|gb|BM266752.1|BM266752
EST:     CGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: CGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|17929919|gb|BM266879.1|BM266879
EST:     AGCTGAGTATGACAGAAG                         GTCCAGGAAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|31998127|gb|CD661940.1|CD661940
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGACGTCGAGCAGGGATCGCT
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGA-TTCGAGCAGGGATCGCT
EST: gi|18163534|gb|BM333373.1|BM333373
EST:     AGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|71764555|gb|DR962492.1|DR962492
EST:     AAGGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AA-GAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|50324674|gb|CO519800.1|CO519800
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|60357771|gb|DN224744.1|DN224744
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18174490|gb|BM349878.1|BM349878
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|17931777|gb|BM268737.1|BM268737
EST:     AAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|74232159|gb|DT640073.1|DT640073
EST:     AAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18175669|gb|BM350898.1|BM350898
EST:     TATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: TATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18167334|gb|BM337173.1|BM337173
EST:     GCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18164732|gb|BM334571.1|BM334571
EST:     GAATAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18167102|gb|BM336941.1|BM336941
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|16921430|gb|BM075145.1|BM075145
EST:     CGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: CGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18168036|gb|BM337876.1|BM337876
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|5566994|gb|AI881905.1|AI881905
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18165701|gb|BM335540.1|BM335540
EST:     GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18166694|gb|BM336533.1|BM336533
EST:     AAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18163210|gb|BM333049.1|BM333049
EST:     AGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|29545137|gb|CB605315.1|CB605315
EST:     AGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18169111|gb|BM338951.1|BM338951
EST:     AGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: AGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
EST: gi|18175096|gb|BM350484.1|BM350484
EST:     CGGAAGCTAGACCGAGCTGAGTATGACAGAAG                         GTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA
genomic: CGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactt ... ctaacaccagGTCCAGGGAAAGGAGCGGGGAACGTGCCAGGGATTCGAGCAGGGATCGCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAGAAGAACAAAAAACGGAAGCTAGACCGAGCTGAGTATGACAGAAGgtgatgactttttccctgaccttttgatgccttgctagtatcaatttagtatttctatttatgatagtgctagaagggcgagtagtcttcaaagcttgatctagtaatactctaacaccag

 AAGAGA
- - - AAGAAC
- - - - - - - - - - - - - - - - AGCTGA