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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGACTTGGCTTCTTATATATCAATCAATCAgtaagatgaagatgagattacattgtatcatagctcatttgttaactcatgtaactcttcgttcttatacatgttaaatgtttcag

Basic information

species Arabidopsis thaliana
transcript AT1G05170.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 5'ss of exon 9
ACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGACTTGGCTTCTTATATATCAATCAATCAgtaaga------tgaagatgagattac---------attgtatcatagctcatttg--ttaactcatgtaactcttcgttcttatacatgttaaatgtttcag
||||||| || || |||   |||||||| |||||||||||||| || || |||||||| || || || | |||  | |||||||||||||||||||| ||||||||      |  ||||  | ||           |||  | ||||     |||    ||||   |     || | |  | |  |        |||||||||
ACTGGAAATTCGGCGAATGGGGGAACAAGTACTTCCGTCATGCAACCGGCCAGTTATATGCAATCTCCAAGGATCTAGCTTCTTATATATCAATCAACCAgtaagaaatttcttcagatttggtttttctttgttgattacaccataatatgttttatctaacctctacccatcattgaccatggatgatggtgatgtttcag

upper sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA06G46230.1 (Glycine max), 5'ss of exon 9
ACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGACTTGGCTTCTTATATATCAATCAATCAgtaagatgaagatgagattacattgtatcatagctcatttgttaactcatgtaactct--tcgttc---ttatacatgttaaatgtttcag---------
||||||||||||| ||   ||| |||| ||||||||||||||| || |||||||| || ||||||||||  || |||||| | || |||||||| || ||||||| |  |  | |  | ||||| |  | || |  |      ||   ||     |||  | |      || ||  |   | |  ||| ||         
ACTGGAAGTTTGGAGAGGCTGGAAACAGATACTTCCGTCATGCCACAGGACAGTTGTATGCCATTTCAAACGATTTGGCTACATACATATCAATTAACCAgtaagttctacttcatctcacattctcacttatcagagaaaaaaaaggataagggtctggttgagtaagttttatctaaaagaacttttaggagagaaaa

upper sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA06G46230.2 (Glycine max), 5'ss of exon 9
ACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGACTTGGCTTCTTATATATCAATCAATCAgtaagatgaagatgagattacattgtatcatagctcatttgttaactcatgtaactct--tcgttc---ttatacatgttaaatgtttcag-------------
    ||||||||| ||   ||| |||| ||||||||||||||| || |||||||| || ||||||||||  || |||||| | || |||||||| || ||||||| |  |  | |  | ||||| |  | || |  |      ||   ||     |||  | |      || ||  |   | |  ||| ||             
----GAAGTTTGGAGAGGCTGGAAACAGATACTTCCGTCATGCCACAGGACAGTTGTATGCCATTTCAAACGATTTGGCTACATACATATCAATTAACCAGTAAgttctacttcatctcacattctcacttatcagagaaaaaaaaggataagggtctggttgagtaagttttatctaaaagaacttttaggagagaaaaaata

upper sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 9
ACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGACTTGGCTTCTTATATATCAATCAATCAgtaagatgaagatga--gattacattgtatca---------tagctcatttgttaactcatgtaactctt--cgttcttatacatgttaaatgtttcag-------------------
| ||||| ||||||||    || |||||||| |||||||| ||||| |||||| |||| ||||||||||  || ||||||   ||||||||||| || ||||||| |     | |    || ||  |  | |          |||  |||  |  | | |||||  || |    | ||  | ||  ||  ||| ||                      
ATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGATTTGGCTAGATATATATCAATAAACCAgtaagttttcacttaccattttcaaggggtaaaaaaggaatcagcaaattcttggattgatgtatttcataatatcctcttccactttttatggttattttgtacatgattattgcag

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|164200003|gb|ES121914.1|ES121914
EST:     CAGTTATACGCCATTTCAAGGGACTTGGCTTCTTATATATCAATCAATCA                         GCATGTTCTTCACAAGTATGC
genomic: CAGTTATACGCCATTTCAAGGGACTTGGCTTCTTATATATCAATCAATCAgtaagatgaa ... aatgtttcagGCATGTTCTTCACAAGTATGC
EST: gi|125248703|gb|EL262788.1|EL262788
EST:     ACTTGGCTTCTTATATATCAATCAATCA                         GCAAGTTCTTCACAAGTATGCGAACGAAGATGTTTCGCTAGGAGCTTGGTT
genomic: ACTTGGCTTCTTATATATCAATCAATCAgtaagatgaa ... aatgtttcagGCATGTTCTTCACAAGTATGCGAACGAAGATGTTTCGCTAGGAGCTTGGTT