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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttccaccccttctcttcccttcctgacgttcgaaaccgagcacccaaatcctaacctaagctatttggctatttgatgtctacttccttgaaccttttgcaaacattatcgggtacatgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCATCCTCATCGTCTTCGCGCCGCACCAAGCAAGAAGCCTCGTG

Basic information

species Zea mays
transcript GRMZM2G114758_T03
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|50330066|gb|CO525192.1|CO525192
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|88758037|gb|DY542178.1|DY542178
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|213167931|gb|FM194811.1|FM194811
EST:     GCCAGGTGCTGNNNTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: GCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|20301530|gb|BQ164473.1|BQ164473
EST:     GTCGATCTCGAGCTCCCACAAG                         GGAAGCTGTCCAGGATGGGATACAACCGCCACATGCGTGGCCGGGGATCAT
genomic: GTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|31356143|gb|CD440500.1|CD440500
EST:     CCGCCTTACGCCCGGTGCCGAGGTCTTCGTCGATCTCGAGCTCCCACAAGGACAAG                    
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCT-CC-C----ACAAGgtatttccac ... catgt
EST: gi|74244151|gb|DT652065.1|DT652065
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|211261561|gb|FL168251.1|FL168251
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|76016358|gb|DT943528.1|DT943528
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|20506938|gb|BQ279408.1|BQ279408
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCTGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|91055730|gb|EB166148.1|EB166148
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|26456351|gb|CA827934.1|CA827934
EST:     -CGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCTGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|78118561|gb|DV536945.1|DV536945
EST:     GTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: GTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
EST: gi|76937011|gb|DV175004.1|DV175004
EST:     CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAG                         GGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT
genomic: CCGCCCTACGCCAGGTGCTGAGGTCTTCGTCGATCTCGAGCTCCCACAAGgtatttccac ... catgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgatgtctacttccttgaaccttttgcaaacattatcgggtacatgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCATCCTCATCGTCTTCGCGCCGCACCAAGCAAGAAGCCTCGTG
 atttgat  putative branch site (score: 5)
                              aaacattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttccaccccttctcttcccttcctgacgttcgaaaccgagcacccaaatcctaacctaagctatttggctatttgatgtctacttccttgaaccttttgcaaacattatcgggtacatgtgttagGGAAGCCGTCCAGGATGGGATACAACCGCCACAGGCGTGGCCGGGGATCATCCTCATCGTCTTCGCGCCGCACCAAGCAAGAAGCCTCGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC