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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGgtcattccttgcaagtagaatcaattgccttttcttaagggaaaaattgtatgtattacaatagtactagtctcatttactttggcattcactctaaggg...

Basic information

species Zea mays
transcript GRMZM2G141873_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141873_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g02120.1 (Oryza sativa), 5'ss of exon 5
AATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGgtcattccttgcaagtagaatcaattgccttttcttaagggaaaaattgtatgtatta--caatagtactagtc--tcatttactttggcatt-cactctaaggg
||||| |||  |||||| ||| | ||||||||||||||||| ||||| |||| ||||||| || | ||||| |||||| |||| |||||||| |||||| ||||| | ||  |  | | ||||  | |      ||  ||||  || |  |||  | |  | ||   |||  |  ||    ||  | | |     
AATGGCACAAAATTCTTTTTCCGGGGCCAGCGTATCTGGGAGGCAGTAATGAGCGAACTTCTACTAAAGGGACTCAGGCATGCCAAACAGgtaattcctagcaagcacaacaatgttcttttttattatttttcaagcgtattcatgattcaaatgcatgaatcaaacatccatcttaatgttatattgt-----

upper sequence: GRMZM2G141873_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv08s0007g00290.t01 (Vitis vinifera), 5'ss of exon 5
AATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGgt-cattccttgca--agtagaatcaattgcc-ttttcttaaggga---aaaattgtatgtattaca-atagtactagtctcatttactttggcattcactctaaggg
||||  |||| | ||||||||||||| ||||| |||||||||||||||||| | |||||  ||   |  || ||    ||||||||||||||   || ||||    |  | | |   |||   ||| ||| |  ||   ||| ||| |  ||||    ||   |  | |||     || | |  | |           
AATGAAACACAACTCTTCTTCAGAGGTCAGCGCATCTGGGAAGCAGTTATGGATGAACTCTTATCAATAGGACTGTCTAATGCTAAACAGgtatctttcttgatgtaacaaattttcttgtagtttccttcaaagattaaaagttgaagatattttgtatgcaagaactctgggacacctagataatttt--------
















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|32838810|gb|CD978491.1|CD978491
EST:     AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAG                         CTTTCAGGCTTTCCTAACAGGATGCTCTGCTGGTGGGCTAGCCACTTACAT
genomic: AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGgtcattcctt ... tctatttcagCTTTCAGGCTTTCCTAACAGGATGCTCTGCTGGTGGACTAGCCACTTACAT
EST: gi|32836882|gb|CD976560.1|CD976560
EST:     AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAG                         CTTTCAGGCTTTCCTAACAGGATGCTCTGCTGGTGGGCTAGCCACTTACAT
genomic: AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGgtcattcctt ... tctatttcagCTTTCAGGCTTTCCTAACAGGATGCTCTGCTGGTGGACTAGCCACTTACAT
EST: gi|32836611|gb|CD976289.1|CD976289
EST:     AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAG                         CTTTCAGGCTTTCCTAACAGGATGCTCTGCTGGTGGGCTAGCCACTTACAT
genomic: AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGgtcattcctt ... tctatttcagCTTTCAGGCTTTCCTAACAGGATGCTCTGCTGGTGGACTAGCCACTTACAT
EST: gi|71418000|gb|DR804278.1|DR804278
EST:     AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAG                         ------G-CTTTCCTAACAGGATGCTCTGCTGGTGGACTAGCCACTTACAT
genomic: AAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGgtcattcctt ... tctatttcagCTTTCAGGCTTTCCTAACAGGATGCTCTGCTGGTGGACTAGCCACTTACAT