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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgctctaccgcttgtgctgctctgttgttgtctaacaatggtaccagaactgatctgtatgttacatgtaaaaaaaaattatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCCCTGAGGAAGCTCTACGAAGACTCCGACAAAATAG

Basic information

species Zea mays
transcript GRMZM2G038598_T03
intron # 5
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|71440043|gb|DR821093.1|DR821093
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|71440044|gb|DR821094.1|DR821094
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|74237590|gb|DT645504.1|DT645504
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|74240923|gb|DT648837.1|DT648837
EST:     GGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: GGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|78085825|gb|DV514218.1|DV514218
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|74237589|gb|DT645503.1|DT645503
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|78085824|gb|DV514217.1|DV514217
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|149087171|gb|EE176707.2|EE176707
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|18660097|gb|BM500685.1|BM500685
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|69351133|gb|DR452031.1|DR452031
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|58029768|gb|CX725195.1|CX725195
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|116828756|gb|EC860854.1|EC860854
EST:     GGATGGGACCGGG                         GTGCGTGATT-CATCCACGTTGTCGACCTGGCTGACGGCCACATAG-AGCC
genomic: GGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|78121122|gb|DV539506.1|DV539506
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
EST: gi|50324852|gb|CO519978.1|CO519978
EST:     CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGG                         GTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC
genomic: CTCACCTCACGGTCTACGGGACGGACTACAGCACCAAGGATGGGACTGGGgtacgtgctc ... attatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacaatggtaccagaactgatctgtatgttacatgtaaaaaaaaattatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCCCTGAGGAAGCTCTACGAAGACTCCGACAAAATAG
                       tgtatgttacatgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtgctctaccgcttgtgctgctctgttgttgtctaacaatggtaccagaactgatctgtatgttacatgtaaaaaaaaattatgccagGTGCGTGATTACATCCACGTTGTCGACCTGGCTGACGGCCACATAGCAGCCCTGAGGAAGCTCTACGAAGACTCCGACAAAATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA