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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAAATATGTATTCAAACACCCTCAACCTAAGCGGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccataagctacaaatttttttctgtgcttattgtttagtccctcatggtccataccgattgtgtaatatttttaacatccaattgttcacattt...

Basic information

species Zea mays
transcript GRMZM2G073054_T02
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073054_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os04g33460.1 (Oryza sativa), 5'ss of exon 9
GAGAAATATGTATTCAAACACCCTCAACCTAAGCGGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccataagctacaaatttttt--tctgtgcttattgt-ttagtccctcatggtccataccgattgtgtaatatttttaacatccaattgttcacattt
|| |||||||||||| |||| ||||||||||| || || || || ||||||||||||||||||||| |||||||||||||||||||||||| ||||| ||  ||| ||||    | |  || |||| ||    |||  |   |  |   || ||                                 
GAAAAATATGTATTCCAACATCCTCAACCTAAACGACCAAATTCGCTGCGGATATATGAATCACATATTGGAATGAGTAGCCCGgtatgccnataagttattaatattttgacttttcttttttgtcttgaaacctttttcgctttgtagaatgcnnnnnnnnnnnnnnnnnnnnnnnnnnnnn---

upper sequence: GRMZM2G073054_T02 (Zea mays), 5'ss of exon 9
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 5'ss of exon 9
GAGAAATATGTATTCAAACACCCTCAACCTAAGCGGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccataagctacaaatttttttctgtgcttattgtttagtccctcatggtc-cataccga----ttgtgtaatattttta-acatccaattgttcacattt--------------------------------------------------------------------------------------------
||||| |||||||||||||| |||||||| ||| | || ||||| ||  |||| |||||| |||||||||| ||||||||| |||| ||    |  ||| |   || | ||   |  ||||  ||| |||| | |        |||| |     | | |||  | |  | |   |  | ||||    | |                                                                                            
GAGAAGTATGTATTCAAACATCCTCAACCAAAGAGACCTAAGTCGCTAAGGATTTATGAAGCACATGTTGGCATGAGTAGCACGgtgtgtgtctg-gctcc---ttgtcttaaataattatgttttggtccttaacatctgtgtaccaagcttctttataacgtatcaatatgccacactgttggtttgttcagtatgtttgtttgactataataacatagatcccaatttctggatatttctctatatcacgtgaataatgtcagtgtacttgttatgcag

upper sequence: GRMZM2G073054_T02 (Zea mays), 5'ss of exon 9
lower sequence: AT2G36390.1 (Arabidopsis thaliana), 5'ss of exon 9
GAGAAATATGTATTCAAACACCCTCAACCTAAGCGGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccataagctacaaatttttttctgtgcttatt--gtttagtccctcatggtccataccgattgtgtaa--tatttttaacatccaattgttcacattt
|| |||||||  |||||||| ||||  || |||   ||||  || ||||| |||||||||||||||||||||||||||||  |||||||    |   ||   |  ||      ||  | | |  ||| |     |||  | | |        || |||  ||  ||| ||||  || |  ||| |   
GATAAATATGCGTTCAAACATCCTCGTCCAAAGAAACCCACATCGCTGCGTATATATGAATCACATGTTGGAATGAGTAGTACGgtatgtttcttt-ctcttatcttggaatggtaatcactaagttcataatgtcactgacaaaggtagaagtttaaactacatttgacatgaaaattctcata---

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|211263679|gb|FL032932.1|FL032932
EST:     GGCCAAAGTCACTGNGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACCTATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
EST: gi|87155797|gb|DY400586.1|DY400586
EST:     GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
EST: gi|26558524|gb|CA830759.1|CA830759
EST:     GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
EST: gi|67022129|gb|CO450878.1|CO450878
EST:     GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA