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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtatacgaactttcgctcgctacggttaacatctgagatcgaccttgcaagatctgagaccttgcaacacgcaaaagcgtactgatgtgtgtctaagtattgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG

Basic information

species Zea mays
transcript GRMZM5G877788_T04
intron # 10
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|211451241|gb|FL460010.1|FL460010
EST:     TACGTCGCGGCGATGCTCAAAAGSGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: TACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|67015011|gb|CO443760.1|CO443760
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|211396502|gb|FK986087.1|FK986087
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCMCATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|76926346|gb|DV170820.1|DV170820
EST:     GGCTTGGTGTGCCTCTTTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|71427484|gb|DR808534.1|DR808534
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|76018157|gb|DT945327.1|DT945327
EST:     GGCTTGGTGTGCCTCTTTACGTCGCGGGGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|78084898|gb|DV513291.1|DV513291
EST:     GGCTTGGTGTGCCTCTTTACGTCGCGGGGATGCTCAAAAGGGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|78123316|gb|DV541700.1|DV541700
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|74243543|gb|DT651457.1|DT651457
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|149077505|gb|EE166202.2|EE166202
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|94474394|gb|EB703352.1|EB703352
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
EST: gi|71428520|gb|DR809570.1|DR809570
EST:     GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCC                         ATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
genomic: GGCTTGGTGTGCCTCTCTACGTCGCGGCGATGCTCAAAAGCGTCCTCGCCgtaagtgtat ... tgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagaccttgcaacacgcaaaagcgtactgatgtgtgtctaagtattgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG
                        tactgat  putative branch site (score: 2)
                                      taagtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgtatacgaactttcgctcgctacggttaacatctgagatcgaccttgcaagatctgagaccttgcaacacgcaaaagcgtactgatgtgtgtctaagtattgttgatcagATCACCAGAGTCACCGGCACATCGCTCCTGCAGAACAACGCTGTG

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