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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcaaatcctatcaatattatcttcatatccacctttcctggtatacaatcaaatgaaaagaaaaagattctaccaaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAACTCTTCCCTAGCAACTCACGAGGAAATTCATCCAACCGGGATGATAAGTG

Basic information

species Arabidopsis thaliana
transcript AT1G29940.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G29940.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA13G26190.1 (Glycine max), 3'ss of exon 21
----------------------------------------gtagcaaatcctatcaa----tat-tatcttcatatccaccttt--------cctggtatacaatcaaatgaaaagaaaaagat-tctaccaaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAACTCTTCCCTAGCAACTCACGAGGAAATTCATCCAACCGGGATGATAAGTG
                                        | ||  | ||  || ||    ||| |||||| |||   |    |        | | | ||      || |   |||    |  | | |  |  | ||||||||||||||||| || ||||||||||||||  |||| ||||| || |  || |  |  ||||||||||| |||||||||||||| |  ||| | ||||
gtcattatagatttttcttctgtatgttgtatacttgtttggagttattctaataaaggcatatctatctttatagagatgagtgatatgaacttaggatttgtcaaatttttaagtgttatgtatttttcttatcagGTTTTTATGGAAATTAGATGTCCTGATGGTGGGGATGGTGGAAGAAAAAGTTCATTTCCTGCAACTCACGAAGAAATTCATCCAACAGTAATGCTTAGTG

upper sequence: AT1G29940.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA17G23500.1 (Glycine max), 3'ss of exon 12
----------------------------------------gtagcaaatcctatcaata---ttatcttcatatccacctttcct---ggtatacaatcaaatgaaaagaaaaagattctac------caaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAACTCTTCCCTAGCAACTCACGAGGAAATTCATCCAACCGGGATGATAAGTG
                                        | ||| | ||  || ||      |||||| |||   |    | ||       ||  ||      ||     ||   || |        |  | ||||||||||||||||| || ||||||||||| ||| |||| ||||| || |  || |  |  |||||||| || |||||||||||||| |  ||| | ||||
gtcattatagatttttcttttgtatgttgtatacttgtttggagctattctaataaaggcacctatctttatagagatgagtgctatgaacttaggatttgtcaaatttttaagtgttttgtatgtttcttatcagGTTTTTATGGAAATTAGATGTCCTGATGGCGGAGATGGTGGAAGAAAAAGTTCATTTCCTGCAACTCATGAAGAAATTCATCCAACAGTAATGCTTAGTG

upper sequence: AT1G29940.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 17
-----------------------------------------------------gtagcaaatcctatcaatattatcttcatatccacctttcctggtatacaatcaaa--tgaaaagaaaaagat-tctaccaaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAACTCTTCCCTAGCAACTCACGAGGAAATTCATCCAACCGGGATGATAAGTG
                                                      | ||   |  || |||   | |  | | ||  |  || |  | |    |||   |  ||   |   |   || | |  ||  | |||||| |||||||||||| |||||||||||| |  ||||||||||||  ||   ||  |  |||||||| || || || ||||| || || ||| | ||||
gtgagtccaggttttccacacatttcttttgtttttacaatcatattttgacctttgctg-ttttagcaaatctgttattagatgtag-ttgctggatgccaaatacgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG

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|116447247|gb|EG489839.1|EG489839
EST:     ATATATCTATACCTTCTGATAATATTGAACTGATTGGACCATTTGAACAG                         GTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAAC
genomic: ATATATCTATACCTTCTGATAATATTGAACTGATTGGACCATTTGAACAGgtagcaaatc ... accaaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAAC
EST: gi|116447248|gb|EG489840.1|EG489840
EST:     ATATATCTATACCTTCTGATAATATTGAACTGATTGGACCATTTGAACAG                         GTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAAC
genomic: ATATATCTATACCTTCTGATAATATTGAACTGATTGGACCATTTGAACAGgtagcaaatc ... accaaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccacctttcctggtatacaatcaaatgaaaagaaaaagattctaccaaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAACTCTTCCCTAGCAACTCACGAGGAAATTCATCCAACCGGGATGATAAGTG
                                         ttctacc  CT-rich tract
                        aaatgaaaagaaaaa  TA-rich tract