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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggagaaagcataaggaactacaatttgaatagagggaatatgttagtaacttactattgttcacattaatgtgcattatgttgacttctaaattgcccagGCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAG

Basic information

species Zea mays
transcript GRMZM2G054715_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G054715_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g49000.1 (Oryza sativa), 3'ss of exon 5
ggagaaagcataaggaactacaatttgaatagagggaatatgttagtaacttactattgttcacat-taatgtgcattatgttgacttctaaattgcccagGCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAG
 |  |     |  |  |    ||      | |     |  | | |    |  |    ||| |  ||  ||  |  |     |  | |  | | |  | ||| |||||||||||||||||||||||||| ||||||||| |||| ||||||||||||||||| ||||| ||||| |||| ||| ||| ||
-gctatgttttgggacagaggaagcacttttgttcttacttttaatcttccgaacggtgtccgtatacaacctctaactcttacattcttgattcactcagACGGAGGCTGGAGAAGCGTATTTATATTCCACTTCCAAATTTTGAAAGCAGAAAGGCACTCATCAATATTAACCTTAAAACTGTTGAG

upper sequence: GRMZM2G054715_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT1G80350.1 (Arabidopsis thaliana), 3'ss of exon 5
ggagaaagcataaggaactacaatttgaatagagggaatatgttagtaacttactattgttcacattaatgtgcattatgttgacttctaaattgcccagGCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAG
               || ||   ||||| |  | |   | | ||||  |||| || |  |  | || ||  |||    | | ||  ||    | |  |||| ||||| |||| || ||||| |||||||||||||||||||| |||||  | ||||| |||||||| || ||||| ||||||||| ||
-----------gtttaaatattctttgagttaatgccgtct-ttag--acttgctctaatata-atgaaattgctgattctggagctcacgttggtgcagGAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAG
















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|211073705|gb|FL043069.1|FL043069
EST:     ATGGTTCTAGCTGCAACAAATTTTCCATGGGATATTGATGAGGCACTGAG                         GCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAG
genomic: ATGGTTCTAGCTGCAACAAATTTTCCATGGGATATTGATGAGGCACTGAGgttggcaaac ... aattgcccagGCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaacttactattgttcacattaatgtgcattatgttgacttctaaattgcccagGCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAG
                                        ttctaaatt  TA-rich tract