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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatgatgatgcagcctttcaccatgtgtaaaatataaatagcctccattaaatctgttattaaccactacatttctgacatgatgtcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTCACGTGGCTATGTCACCTGCAAAAGCGAAACCATTCTATGCTTCTCTAGT

Basic information

species Zea mays
transcript GRMZM2G100260_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G100260_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g14040.1 (Oryza sativa), 3'ss of exon 4
------gtaatatgatgatgcagcctttcaccatgtgtaaaatataaatagcctccattaaatctgttattaaccactacatttctgacatgatgtcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTCACGTGGCTATGTCACCTGCAAAAGCGAAACCATTCTATGCTTCTCTAGT
      ||||||| ||   |||    |   ||  |  |  || ||   ||  ||  | ||  | |||| |||   ||  | || || |  |||| |  | |||||||||||| || |||||||| || |||||||||||||| |||||||||||||| ||||||||| ||||||| ||||| || ||||||||||||||| ||||
gtaggagtaatataatacagcatttctagtcccagatttgaaaattcttaagctgtagtagctttgttgttattgacaccgttactaagctgatatactattcagTCAGTCAATTTACCTTATATGGAATCCTGAAGGGTAACAAGCCAGATTTTCATGTGGCTATGCCACCTGCTAAAGCAAAGCCATTCTATGCTTCTTTAGT

upper sequence: GRMZM2G100260_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT4G18460.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------gtaatatgatgatgcagcctttcaccatgtgtaaaatataaatagcctccattaaatctgttattaaccactacatttctgacatgatgtcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTCACGTGGCTATGTCACCTGCAAAAGCGAAACCATTCTATGCTTCTCTAGT
                                || |||| |   |    || | | ||||    || ||   ||  |   ||   ||| ||  |  ||      |||    ||||     |  | |||| ||||| ||||| ||||||||  || |||| ||||| || ||||||||||| || || ||| ||||||  ||||||||||| || || || ||| ||||
gtaatgatgcatctctttattattcatataccatttgattagagaaaggtttagcttgtggtttatgtactgaggtttgttt---tct-ttgcttgccctggtctttggatcatgtgtgttaatacagTTAGTCAATTCACATTATACGGATTCTTGAAAGGTAACAAACCAGATTTTCATGTCGCAATGCCACCTGATAAAGCGAAACCTTTTTACGCCTCTTTAGT
















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|211144459|gb|FL048070.1|FL048070
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
EST: gi|211144465|gb|FL048076.1|FL048076
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
EST: gi|211144466|gb|FL048077.1|FL048077
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
EST: gi|211144461|gb|FL048072.1|FL048072
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
EST: gi|89248178|gb|DY619964.1|DY619964
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
EST: gi|211144462|gb|FL048073.1|FL048073
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
EST: gi|14701176|gb|BI233594.1|BI233594
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
EST: gi|211144469|gb|FL048080.1|FL048080
EST:     GTTATGCAGCGTAACTTTGAAGTGCTATTGG                         TCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC
genomic: GTTATGCAGCGTAACTTTGAAGTGCTATTGGgtaatatgat ... tcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctccattaaatctgttattaaccactacatttctgacatgatgtcttcttcagTCAGTCAGTTCACCTTATACGGCATCCTGAAGGGTAATAAGCCAGATTTTCACGTGGCTATGTCACCTGCAAAAGCGAAACCATTCTATGCTTCTCTAGT
                                           tgtcttcttc  CT-rich tract
      attaaatctgttatta  TA-rich tract