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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGGTCCGGATTCTATTGGTATCGTAGCTGTTTCACGCAACTGCAGTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgtaatggtgttttctttttattttaatcttgtgttgtaagaagcggaaattctacgaaggcaatctaaacttcaaatactgtgtag

Basic information

species Arabidopsis thaliana
transcript AT1G30490.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30490.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os12g41860.1 (Oryza sativa), 5'ss of exon 5
CCTGGTCCGGATTCTATTGGTATCGTAGCTGTTTCACGCAACTGCAGTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgtaatggtgttttctttttattttaatcttgtgttgta-agaagcggaaattctacgaaggcaatctaaacttcaaatactgtgtag
|||||||||||||| ||||| ||| | |||||||| | ||| ||||||||  |||||||||| || || ||||| |||||  | || ||||  |||||| || | | || |  ||  | |  | ||   ||    |  | | |  || ||||  |  |    ||| |||||  |         
CCTGGTCCGGATTCCATTGGAATCATCGCTGTTTCGCACAATTGCAGTGGCGTAGCAGCACGAGCTTGCGGCCTGGTGAGCCTTGAGCCCACAAAGgta-tgatttgttttccttgatattgtgttacatttcccattaactggcatgctacagaccctga-taagcttcattttag------

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G13640.1 (Glycine max), 5'ss of exon 5
CCTGGTCCGGATTCTATTGGTATCGTAGCTGTTTCACGCAACTGCAGTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgtaa-----tggt---gttttctttttatttta--atcttgtgttgtaagaagcggaaattctacgaaggca---atctaaactt-caaatactgtgtag-----
|||||||||||||| ||||| |||||||||||||| |||||||| |||||  | |||||||| ||||| ||||| |||||  | || ||||  ||||||      |||     ||||| |||| ||| |  || |||     | | ||  |    ||||       ||    | |    ||   | |  ||| ||      
CCTGGTCCGGATTCCATTGGAATCGTAGCTGTTTCCCGCAACTGTAGTGGCGTGGCAGCACGAGCCTGCGGCCTTGTGAGCCTGGAGCCCACTAAGgtatgttattggctccattttccttttttttcacaatgttgaacaatgaaaaatgtcttttctttactctcattagtttgtgtttgtgactgttgtttatgtcag

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G13110.1 (Glycine max), 5'ss of exon 5
CCTGGTCCGGATTCTATTGGTATCGTAGCTGTTTCACGCAACTGCAGTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgta----atggtg--ttttctttttattttaatcttgtgttgtaagaagcggaa----attctacgaaggcaatctaaacttcaaatactgtgtag
|||||||||||||||||||| ||||| |||||||| |||||||| |||||  |||| ||| | ||||||||||| |||||  | || ||||  ||||||    |  ||     ||| ||  |   | || || | |  | |  |  | ||      | ||   |   ||||   | | |||||  | |  ||
CCTGGTCCGGATTCTATTGGAATCGTTGCTGTTTCCCGCAACTGTAGTGGTGTAGCGGCAAGAGCCTGTGGCCTTGTGAGCCTTGAGCCCACAAAGgtatttaactgtaaccattcattgcagaattattttctttgctgaacaatgaaaccttgctttattgaactaatc-gcattccaaatcatct-cag

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G02750.1 (Glycine max), 5'ss of exon 5
CCTGGTCCGGATTCTATTGGTATCGTAGCTGTTTCACGCAACTGCAGTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgta--atggtgttttctttttattttaatcttgtgttg-taagaagcggaa---attctacgaaggcaatctaaacttcaaatactgtgtag
|||||||||||||||||||| ||||| |||||||| |||||||| |||||  | |||||||| ||||| ||||| |||||  |||| ||||  ||||||   || ||  | | | ||  |||| |      ||| |||  |  | ||    ||  | ||||    | |    | |   |  | |  ||
CCTGGTCCGGATTCTATTGGAATCGTTGCTGTTTCCCGCAACTGTAGTGGCGTGGCAGCACGAGCCTGCGGCCTTGTGAGCCTAGAGCCCACTAAGgtatgttgctggctccatgttcctttatttccactttgataaacaatgaaactggtttcatgaagttg-tgtttgttgctgttgtttttcag

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G30000.1 (Glycine max), 5'ss of exon 5
CCTGGTCCGGATTCTATTGGTATCGTAGCTGTTTCACGCAACTGCAGTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgta--atggtgttttctttttattttaatcttgtgttgtaagaagcggaaattctacgaaggcaatctaaacttcaaatactgtgtag-
|||||||||||||||||||| || || |||||||| |||||||| |||||  |||| ||| | ||||||||||| |||||  |||| ||||  ||||||  ||| |||  |     |  || | |  ||     | | |    |   || ||   |   |||     |||   | |   | |   
CCTGGTCCGGATTCTATTGGAATTGTTGCTGTTTCCCGCAACTGTAGTGGCGTAGCGGCAAGAGCCTGTGGCCTTGTGAGCCTAGAGCCCACAAAGgtattatgctgtaatgaagcttattcattgctgaacaatgaaaccttg---ttttattgaactaatt---gctttccacatcatctcag

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 5'ss of exon 5
CCTGGTCCGGATTCTATTGGTATCGTAGCTGTTTCACGCAACTGCAGTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgtaatggtgttttctttttattttaatcttgtgttgtaagaagcggaaattctacgaaggcaatctaaacttcaaatactgtgtag
|||||||||||||||||||| ||||| |||||||| |||||||| |||||  |||||||||| |||||||||||||||||| ||||||||| ||||||| | ||  |  ||| || ||    | ||||  ||    | |      |   | | | |   |   | ||| | |          
CCTGGTCCGGATTCTATTGGAATCGTTGCTGTTTCCCGCAACTGTAGTGGGGTAGCAGCACGAGCCTGTGGCCTCGTGAGTCTAGAACCCACGAAGgtacttgtcctgacttgtttttactctattgtactgcgtta-gttttggtgtaaagtatgtggtaacatctttacag---------

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|116415557|gb|EG458149.1|EG458149
EST:     GTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAT                         GTCGCTGAA-TCCTCAAAGATCGTCCATCTTGGTTCCGTGACTGTCGATGT
genomic: GTGGAATAGCAGCACGTGCCTGTGGCCTCGTGAGTTTAGAACCCATGAAGgtaatggtgt ... tactgtgtagGTCGCTGAAATCCTCAAAGATCGTCCATCTTGGTTCCGTGACTGTCGATGT