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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttagttattccggttcatttcttctctgcatcattttcagtaaattatactttttaacttccaaatgtgaacgcttgagttgcttttcatgcaccttaaagtgattaaatgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCAGCAATGCGATTTGTTCCTGATCAGCACCCGAGAGAAGGCGAATTGGATG

Basic information

species Arabidopsis thaliana
transcript AT3G61480.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 8
gtagttagttattccggttcatttcttct-ctgcatcattttcagtaaattatact---ttttaacttccaaatgtgaacgcttgagt-tgc-ttttcatgcacctta-aagtgattaaatgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCAGCAATGCGATTTGTTCCTGATCAGCACCCGAGAGAAGGCGAATTGGATG
|||  |   || |       | || |||| ||   |  | |     |  |||| ||   ||||   ||  |||| |   || |  ||  ||| || | || ||  ||  ||||||| | ||||||||||||||||  ||||| ||||  | || || |||||||| ||||||||||| ||||||||||||||  |||||||||| |  || ||||||      |   |  
gtaaatgcatacttgcacatagtttttctacttttttttgtctcaaatgttatgctccattttttatttgaaatttcttcgataaagcctgcattgttatacattttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAACTTCCAAGAGAATCTATTTCAAACA

upper sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA09G39270.1 (Glycine max), 3'ss of exon 8
------gtagttagttattccggttcatttcttctctgcatcattttcagtaaattatactt-tttaacttccaaatgtgaacgcttgagttgcttttcatgcaccttaaagtgattaaatgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCAGCAATGCGATTTGTTCCTGATCAGCACCCGAGAGAAGGCGAATTGGATG
      | |     | |    | ||   | ||||| ||  |||| ||| ||   || |  || ||| |  |      |  || || ||  | | | | |||     || ||||||| | ||||||||||||||||  ||||| ||||  | || || |||||||| ||||||||||| ||||||||||||||  ||||||||||    || ||||||      |   |  
gtaaatgcatactttcacatagtttttctacttctttgtctcatgttctgttccttttttttatttgaaatttcttcgataaagcctgcatcgttatacat---tttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAATTTCCAAGAGAATCTATTTCAAACA

upper sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 8
--------------gtagttagttattccggttcatttcttctctgcatcattttcagtaaattatactttttaacttccaaatgtgaacgcttgagttgcttttcatgcaccttaaagtgattaaatgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCAGCAATGCGATTTGTTCCTGATCAGCACCCGAGAGAAGGCGAATTGGATG
               ||  || || ||  || |  ||     | ||||   |||  ||    ||  |   |  | |    || |||||  |    | ||  | ||||||||  || ||||||| |||||||||||||||||| |||||| ||||| | || |||||||||||||||| ||||||  |||| ||||| ||| | ||||||||||  || |||||   |   |   |  
gtaaaaaaaaaaaactatctaatt-ttatgggtggttgtgaatttgcaaagtttcgag----ttgcataatgaatcagagaattgtga-tggaacatttattcttcatgcatttttaagtgataaaatgacaaacagCTTTCTACAGTACGAGAGCTCTCTATCATGACTGCAAAGACCCATCCTTCAGCGATGCGTTTTATCCCTGATCAGCTTCCAAGAGAGTACATCTCAAAGA

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|19875149|gb|AU235980.1|AU235980
EST:     ATATATGGTGAATTGACACCTTCAAGCAAAGCAGATCTACAG                         CTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCA
genomic: ATATATGGTGAATTGACACCTTCAAGCAAAGCAGATCTACAGgtagttagtt ... tgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgaacgcttgagttgcttttcatgcaccttaaagtgattaaatgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCAGCAATGCGATTTGTTCCTGATCAGCACCCGAGAGAAGGCGAATTGGATG
                               ttaaagtgattaaat  TA-rich tract