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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTGGTGCTGGAAACTATGCAATGTGTGGGCGTGCATACAGTCCAGATTTTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccagaatgcaccgaaatgtttaaaccgaaaccaaactgaatcaaaatgtgtttataatcttagtgtagcagaacaaaattcagtttggttttgtttgacgttgttattggcttggcgaaaactttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G34030.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 7
CTTTGGTGCTGGAAACTATGCAATGTGTGGGCGTGCATACAGTCCAGATTTTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccagaatgcaccgaaatgtttaaaccgaaaccaaactgaatcaaaatgtgtttataatcttagtgtagcagaacaaaattcagtttggttttgtttgacgttgttattggcttggcgaaaactttgcag
 ||||||||||||||||||| ||||||||| ||||||||||||||| ||||| |||| || |||||||  || || ||     ||||||| |||   ||||||||    ||   | |    |||| |  | |      |  | | |   | | |||  |   || ||||  || |   ||  |||    ||  |    ||  |                               
TTTTGGTGCTGGAAACTATGGAATGTGTGGACGTGCATACAGTCCAAATTTTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaa----aacttatctttttgttgattcagcttgtcatataacttttact-tgtacaatttcctagtcaagaatttcatgattgtaattattggcattccatt-----------------------------

upper sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA02G14860.1 (Glycine max), 5'ss of exon 7
CTTTGGTGCTGGAAACTATGCAATGTGTGGGCGTGCATACAGTCCAGATTTTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccagaatgcaccgaaatgtttaaaccgaaaccaaactgaatcaaaatgtgtttataatcttagt-gtagcagaacaaaattcagtttggtt-ttgtttgacgttgttattggcttggcgaaaactttgcag
||||||||| ||||||||||||||||| || ||||| || |||||  ||||  ||||| ||||||| || || ||||||    | ||||| || ||||||||||   | |   || |   |    | |      |        ||  || ||   ||| |    ||  | ||  |||||||    |  |  ||||| |||||                                  
CTTTGGTGCAGGAAACTATGCAATGTGCGGTCGTGCCTATAGTCCCAATTTCTTGTTCCTTTGGCCTAATGCTAGAATTTCTGTGATGGGTGGTGCTCAGgtaatatacatctcatc---actcatgagttatgattctttacaagaaagataaatttttggcattgattgttccagaacattgctttgcatggttattgttc---------------------------------

upper sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G33620.1 (Glycine max), 5'ss of exon 7
CTTTGGTGCTGGAAACTATGCAATGTGTGGGCGTGCATACAGTCCAGATTTTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccagaatgcaccgaaatgtttaaaccgaaaccaaactgaatcaaaatgtgtttataatcttagtgtagcagaacaaaattcagtttggtt-ttgtttgacgttgttattggcttggcgaaaactttgcag
||| ||||| |||||||||||||||||||| ||||| || |||||  | ||  ||||| |||||||||| || |||||     | ||||| || ||||||||     | ||| | |         |||  |   |  |   |  |  | || || ||   | |  |||     |||||||    ||   |||||| |||||      |||  |  |                   
CTTCGGTGCAGGAAACTATGCAATGTGTGGTCGTGCCTATAGTCCCAACTTCTTGTTCCTTTGGCCAAATGCTAGAATATCTGTAATGGGTGGTGCTCAGgttg--tataattctca--------taactcatgatta---tttacaagaaagtattggcattagtagatc--cagaacatcgctcttcttggttattgttctgtactgt-gtgag-------------------

upper sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv03s0063g00290.t01 (Vitis vinifera), 5'ss of exon 8
CTTTGGTGCTGGAAACTATGCAATGTGTGGGCGTGCATACAGTCCAGATTTTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccagaatgcaccgaaatgtttaaaccgaaaccaaactgaatcaaaatgtgtttataatcttagtgtagcagaacaaaattcagtttggttttgtttgacgttgttattggcttggcgaaaactttgcag
||||||||||||||| ||||||||||||||||||||||| |||||  |||| |||||| |||||||||| ||||||||   | | ||||| || |||||||| | ||     ||  | | ||||||     |  ||   | ||  |  ||   |  || | ||    |  ||| |      |||    || |||  ||||||   || ||| |                     
CTTTGGTGCTGGAAATTATGCAATGTGTGGGCGTGCATATAGTCCCAATTTCATGTTCCTTTGGCCAAATGCCAGAATATCCGTGATGGGTGGTGCTCAGgttagccctttagc-tcaatatgttttgcatgtgactctaatg--ttgaa---tacttgtcatt---gcttagtacttttcaatc---ttaggtggtgtttgttttt-ttact---------------------

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|301503246|gb|HO208786.1|HO208786
EST:     TTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAG                         GCTGCAGGTGTTTTAACTCAGATTGAAAGGGCTACCAAGAAGAGACAAGGA
genomic: TTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccaga ... aactttgcagGCTGCAGGTGTTTTAACTCAGATTGAAAGGGCTACCAAGAAGAGACAAGGA
EST: gi|124974837|gb|EL048372.1|EL048372
EST:     TTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAG                         GCTGCAGGTGTTTTAACTCAGATTGAAAGGGCTACCAAGAAGAGA
genomic: TTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccaga ... aactttgcagGCTGCAGGTGTTTTAACTCAGATTGAAAGGGCTACCAAGAAGAGA