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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatcctcctttaatcaatgtttgctgacttaagtacactgttttctgtaatttggctccttgttggtaacacatatagatctaacccctgctacttcactgcagATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG

Basic information

species Zea mays
transcript GRMZM2G180418_T03
intron # 9
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|74243279|gb|DT651193.1|DT651193
EST:     ATGAAGCAGTTCAGCAAATTGCCTATGCTGACAGAATTATAGTTAACAAG                         ATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG
genomic: ATGAAGCAGTTCAGCAAATTGCCTATGCTGACAGAATTATAGTTAACAAGgtgatcctcc ... ttcactgcagATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG
EST: gi|6431812|gb|AW172016.1|AW172016
EST:     ATGAAGCAGTTCAGCAAATTGCCTATGCTGACAGAATTATAGTTAACAAG                         ATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG
genomic: ATGAAGCAGTTCAGCAAATTGCCTATGCTGACAGAATTATAGTTAACAAGgtgatcctcc ... ttcactgcagATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG
EST: gi|211350103|gb|FL241788.1|FL241788
EST:     ATGAAGCAGTTCAGCAAATTGCCTATGCTGACAGAATTATAGTTAACAAG                         ATTGATCTTGTCAAAGAACCTGAAGTGTYGTCCTTGGTTGAGCGTATAAGG
genomic: ATGAAGCAGTTCAGCAAATTGCCTATGCTGACAGAATTATAGTTAACAAGgtgatcctcc ... ttcactgcagATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttggctccttgttggtaacacatatagatctaacccctgctacttcactgcagATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG
                             atctaac  putative branch site (score: 2)
                                         ctacttc  putative PPT
                       atatagat  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatcctcctttaatcaatgtttgctgacttaagtacactgttttctgtaatttggctccttgttggtaacacatatagatctaacccctgctacttcactgcagATTGATCTTGTCAAAGAACCTGAAGTGTTGTCCTTGGTTGAGCGTATAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG