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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGACAAATTGGAAAAACTAAGAGAAAGGATGGTTAAAGTTCGCGAGCTTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatctaccacatgcatctccttgatgtcctcctatcttcaagaataaaatccattggctgagaacttccgtccaatgttggtcttaagttggcatctcactgctcattactttttgtttatctcataaag

Basic information

species Arabidopsis thaliana
transcript AT3G10350.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G10350.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os02g51100.1 (Oryza sativa), 5'ss of exon 8
GCCGACAAATTGGAAAAACTAAGAGAAAGGATGGTTAAAGTTCGCGAGCTTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaat-atctaccacatgcatctccttgatgtcctcc-----tatcttcaagaataaaatccattggctgagaacttccgtccaatgttggtcttaagttggcatctcactgctcattactttttgtttatctcataaag
||  ||||||||||  | || ||||||||||||||  |||| || || ||||| ||||||||||| ||||| |||||  | ||||| ||||| ||||| ||||  ||       || |||  ||       | ||      ||| |   ||  ||| | ||||   ||    | |||| |      ||  | | |                                            
GCAAACAAATTGGAGCAGCTGAGAGAAAGGATGGTCCAAGTGCGAGAACTTTTTCGTGACACAGAATCAACTGAATTTATAATTGTGACTATTCCAACAgtaaagattctgtgtatccattcccccaccaccttctgtatgtatttatcagtgtaatagccat---ctttatatttccttttggcatt--tttcag-------------------------------------------

upper sequence: AT3G10350.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G105539_T01 (Zea mays), 5'ss of exon 8
GCCGACAAATTGGAAAAACTAAGAGAAAGGATGGTTAAAGTTCGCGAGCTTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatctaccacatgcatctccttgatgtcctcctatcttcaagaataaaatccattggctgagaacttccgtccaatgttggtcttaagttggcatctcactgctcattactttttgtttatctcataaag
||  ||||||| ||  |||| |||||||||||||| |||||  | ||||||||||| ||||| || |||||||| ||  | || || || |||||||||||||   |||     |       |||     ||  |   | |  |  ||  | ||| |||   |  |  ||    |   | |   | ||    ||| || |  | |                            
GCGAACAAATTAGAGCAACTCAGAGAAAGGATGGTCAAAGTAAGAGAGCTTTTCCGCGACACGGAATCAACAGAGTTTATAATCGTGACAATCCCAACGgtaa---ctattgtgt------tcttagctccccacccccctagaatatgtactcccttgaaggtaatatttta-ctgctatc--ttttgcactggtatttttcag----------------------------

upper sequence: AT3G10350.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G32200.1 (Glycine max), 5'ss of exon 9
GCCGACAAATTGGAAAAACTAAGAGAAAGGATGGTTAAAGTTCGCGAGCTTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatctaccacatgcatctccttgatgtcctcctatcttcaagaataaaatccattggctgagaacttccgtccaatgttggtcttaagttggcatctcactgctcattactttttgtttatctcataaag
|| ||||||||||| ||||| ||||| |||||| | ||||| ||||| || || ||||| || || || || ||||| |||||||| || ||||| ||||||  |  ||  ||  |          || |  |  |||  |   ||||  | |  ||    |   | |  |   || |    |      | |||     |    |||  |||                     
GCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTCTTTCGTGATACTGATTCGACCGAATTTGTCATTGTTACAATCCCCACGgtatgacttataactggtgc-------atataatgatataatggtgaattgactt-ataatttagtatcaccaaccctaccgagac---gaattgaaggattttggct--tta---------------------

upper sequence: AT3G10350.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv13s0019g04590.t01 (Vitis vinifera), 5'ss of exon 9
GCCGACAAATTGGAAAAACTAAGAGAAAGGATGGTTAAAGTTCGCGAGCTTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatctaccacatgcatctcct-----tgatgtcctcctatcttcaagaataaaatccattggctgagaacttccgtccaatgttggtcttaagttggcatctcactgctcattactttttgtttatctcataaag
|| |||||||| ||   |||||| || || ||||| ||||| || |||||||||||||||||||| || |||||||| ||||| || || ||||| ||||||| | | |  | |   || |  |     |||| |  | || | |  |  ||         |||| ||          |  | ||||| | | |  ||                                        
GCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTTTTCCGTGACACAGACTCGACAGAATTTGTCATAGTAACAATCCCTACGgtaaaaaccattataaaaatgttttggcactgat-tatttctgtttctagtaaagggtgtgtttggttgcagctgcaaatatattgttgttataaccttaa--------------------------------------

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|125240523|gb|EL254608.1|EL254608
EST:     TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACG                         GTAATGGCTGTCAGCGAGTCTTCTAGGTTAAGTGCTTCCTTGAAGAAGGAA
genomic: TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatcta ... tctcataaagGTAATGGCTGTCAGCGAGTCTTCTAGGTTAAGTGCTTCCTTGAAGAAGGAA
EST: gi|47828746|gb|CK118430.1|CK118430
EST:     TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACG                         GTAATGGCTGTCAGCGAGTCTTCTAGGTTAAGTGCTTCCTTGAAGAAGGAA
genomic: TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatcta ... tctcataaagGTAATGGCTGTCAGCGAGTCTTCTAGGTTAAGTGCTTCCTTGAAGAAGGAA
EST: gi|116412741|gb|EG455333.1|EG455333
EST:     TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACG                         GTAATGGCCGTCAGCGAGTCTTCTAGGTTAAGTGCTTCCTTGAAGAAGGGA
genomic: TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatcta ... tctcataaagGTAATGGCTGTCAGCGAGTCTTCTAGGTTAAGTGCTTCCTTGAAGAAGGAA
EST: gi|125272431|gb|EL286516.1|EL286516
EST:     TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACG                         GTAATGGCTGTCAGCG
genomic: TTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACGgtaatatcta ... tctcataaagGTAATGGCTGTCAGCG