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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTCCAAGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatctaaggataatgatatgaattgaatcctcatgcctctgtatttttataacttcaacaacatgttcgtatatttctgtgattggatttattcttatatcgctttctgcattttggtag

Basic information

species Zea mays
transcript GRMZM2G177970_T02
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G177970_T03 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os01g54020.1 (Oryza sativa), 5'ss of exon 11
ATGTCCAAGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggat-ctaaggataatgatatgaattgaatcctcatgc-ctctgtatttttataacttcaacaacatgttcgtatatttctgtgattggatttattcttatatcgctttctgcattttggtag
||||| ||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||   | ||| ||       ||||||    ||| |||   |  |||  | ||   | | |  || ||   |  || ||  |  | | | |  |  |   |  |   |||              
ATGTCGAAGTCTGCTCCTTCAGATCAGTCTCGTATTAACCTTCTTGATCCAAAAGATgtaagggcaccaagaat-------tgaatt---ccctgatgtgtttcgtaaatatagtgcataactaatat---caaattttattacgctagcacatggtagaaggtgcattt--------------

upper sequence: GRMZM2G177970_T03 (Zea mays), 5'ss of exon 10
lower sequence: AT2G25840.2 (Arabidopsis thaliana), 5'ss of exon 9
ATGTCCAAGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatctaaggataatgatatgaattgaatcctcatgcctctgtatttttataacttcaacaacatgttcgtatatttctgtgattggatttattcttatatcgctttctgcattttggtag
|||||||||||||| ||||| || ||||| || ||||| || |||||| |||||||||||||    |||    |||||  | | |    | ||  ||  | |||  || |    || | | | |   |||  ||   ||  |  | | |  ||                             
ATGTCCAAGTCTGCCCCTTCTGATCAGTCCCGGATTAATCTCCTTGACTCAAAAGATgtaag----taa----aatgaactcactcatgttctt-tgtatgtgttcttgttctgctactaaatccatttctcatccctcctt--tcgaaaatag----------------------------

upper sequence: GRMZM2G177970_T03 (Zea mays), 5'ss of exon 10
lower sequence: Vv04s0008g00200.t01 (Vitis vinifera), 5'ss of exon 11
ATGTCCAAGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatctaaggataatgatatgaattgaatcctcatgcctctgtatttt--tataacttcaacaacatgttcgtatatttctgtgattggatttattcttatatcgctttctgcattttggtag
||||||||||||||| ||||||| ||||||||||| ||||||||||||||||||||||| ||            |||| ||   |||  |   | || | || | ||||  ||| | ||    ||| | | |   |   |   |  ||  | ||  ||  ||                      
ATGTCCAAGTCTGCTTCTTCAGATCAGTCTCGTATCAACCTTCTTGACCCAAAAGATgtgagt---------cgatgacatttcttgtctttgc-tgtcactattttttggtatcatttttttaacct-tccacttgggtagatagtttaagtttatccaatgcaaaa----------------

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|32944158|gb|CF048977.1|CF048977
EST:     AGTCTGCTCCTTCAGACCAATCTCGTATTAACCTTCTTGACCCAAAAGAT                         GTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
genomic: AGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatct ... attttggtagGTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
EST: gi|71449703|gb|DR830753.1|DR830753
EST:     AGCCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGAT                         GTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
genomic: AGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatct ... attttggtagGTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
EST: gi|32930432|gb|CF035244.1|CF035244
EST:     AGTCTGCTCCTTCAGACCAATCTCGTATTAACCTTCTTGACCCAAAGGAT                         GTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
genomic: AGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatct ... attttggtagGTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
EST: gi|32930572|gb|CF035384.1|CF035384
EST:     AGTCTGCTCCTTCAGACCAATCTCGTATTAACCTTCTTGACCCAAAGGAT                         GTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
genomic: AGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatct ... attttggtagGTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
EST: gi|78120427|gb|DV538811.1|DV538811
EST:     AGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGAT                         GTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG
genomic: AGTCTGCTCCTTCAGACCAGTCTCGTATTAACCTTCTTGACCCAAAAGATgtaaggatct ... attttggtagGTGATTGCAAATAAGATCAAGCGCTGCAAAACTGACTCATTCCCAGG