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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGAGATTGTTACTCTTTGGTATAGAGCTCCTGAAGTTCTTCTTGGATCTACTCATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgttagtagtctcaattatgcttttatgtttttgaattcgtctctctgcgatgtgattttgtatttatgctgtttcaatctttgaatttgtatag

Basic information

species Arabidopsis thaliana
transcript AT3G54180.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G54180.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os01g67160.1 (Oryza sativa), 5'ss of exon 4
CATGAGATTGTTACTCTTTGGTATAGAGCTCCTGAAGTTCTTCTTGGATCTACTCATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgt-tagtagtctcaattatgcttttatgtttttgaattcgtctctctgcgatgt------gattttgtatttatgctgttt-caatctttgaatttgtatag
      ||||| ||||||||||| ||||||||||||||| | |||||||| || ||||| ||||| ||||||||||| ||||| |||||||| ||||| ||| |  |  | |  ||  |  ||     ||| ||    |   ||  |   || |       |          |  |||  | |||  ||| ||         
------ATTGTGACTCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGATCAACACATTACTCAACCGGTGTTGACATTTGGTCCGTTGGTTGCATCTTCGgtatgctccttttgatctttgttacggctttgtgggggcacttcattcttatatttgaaaaaccaaaagcacaacctggatacaacttttaaacaaacgc--

upper sequence: AT3G54180.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G495626_T03 (Zea mays), 5'ss of exon 4
CATGAGATTGTTACTCTTTGGTATAGAGCTCCTGAAGTTCTTCTTGGATCTACTCATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgttagtagtctcaattatgcttttatgtttttgaattcgtctctctgcgatgtgattttgtatttatgctgtttcaatctttgaatttgtatag-----------
      ||||| || |||||||| ||||||||||||||| | |||||| | || ||||| |||||||| ||||| |||||||||||||| || ||||||||| |||     |  || | ||||| |    |||| |     |  |    |  |  | ||||| |       |  | |  | |   | | ||  |           
------ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagt-----ctgttctccttttttagccttgagtcatgatgccaagtactttgtcttgtactggaaacttgacgaattatatgtatataatgtacggagtaaa

upper sequence: AT3G54180.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA07G02400.1 (Glycine max), 5'ss of exon 1
CATGAGATTGTTACTCTTTGGTATAGAGCTCCTGAAGTTCTTCTTGGATCTACTCATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgttagt-agtctcaattatgcttttatgtttttgaattcgtctctctgcgatgtgattttgtatttatgctgtttcaatc---tttgaatttgtatag------
|| ||||| |||||||| |||||  | || || || ||||| ||||| ||||| ||||| || ||||| ||||| || ||||||||||| || ||||||||| ||| ||||     | |   | | | | | |    |  |  || |  ||   |  |||| ||  ||| |     |||    |||||||||  || |      
CACGAGATCGTTACTCTCTGGTACCGTGCCCCCGAGGTTCTCCTTGGCTCTACCCATTACTCCACTGGGGTTGATATCTGGTCTGTTGGCTGCATCTTTGgtcagtcagtccaccctctctctctctctctctattctaattactttttga---gtctttggatcaatgtttgcaaaattgattttgaattta-atggatttta

upper sequence: AT3G54180.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S127_92V6.1 (Physcomitrella patens), 5'ss of exon 5
CATGAGATTGTTACTCTTTGGTATAGAGCTCCTGAAGTTCTTCTTGGATCTACTCATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgttagtagtctca-attatgcttttatgtttttgaattcgtctctctgcgatgtgattttgtat--ttatgctgtttcaatctttgaatttgtatag------------
      ||||||||||| |||||  ||||||||||||||||||||||| | || || || ||      ||| || || ||||||||||| || ||||| ||| ||  | || | || ||   |  | |  | ||  |     || ||   ||   ||     |    |  ||||    ||| | | |  ||| || |            
------ATTGTTACTCTATGGTACCGAGCTCCTGAAGTTCTTCTTGGAGCGACCCACTACTCTCTACCTGTGGATATCTGGTCTGTTGGGTGCATCTTCGgtaagctgccttacataatttctagaggcatctgtctatacatcactatcatcgaatagcaaacaactcagctgcgctaat-tctaaccttggatcggatactcaacag

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|86084322|gb|DR380081.1|DR380081
EST:     TACTCATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTG                         CTGAGATGGTTCGGAGGCAAGCTCTTTTCCCTGGTGATTCTGAGTTTCAGC
genomic: TACTCATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgttagtagtc ... atttgtatagCTGAGATGGTTCGGAGGCAAGCTCTTTTCCCTGGTGATTCTGAGTTTCAGC
EST: gi|164143614|gb|ES022059.1|ES022059
EST:     GGTGTTGACATGTGGTCTGTTGGTTGTATCTTTG                         CTGAGATGGTTCGGAGGCAAGCTCTTT-CCCTGGTGATTCTGAGTTTCAGC
genomic: GGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgttagtagtc ... atttgtatagCTGAGATGGTTCGGAGGCAAGCTCTTTTCCCTGGTGATTCTGAGTTTCAGC
EST: gi|164076450|gb|ES133249.1|ES133249
EST:     ATTATTCGACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTG                         CTGAGATGGTTCGGAGGCAAGCTCTTTTCCCTGGTGATTCTGAGTTTCAGC
genomic: ATTATTCAACTGGTGTTGACATGTGGTCTGTTGGTTGTATCTTTGgttagtagtc ... atttgtatagCTGAGATGGTTCGGAGGCAAGCTCTTTTCCCTGGTGATTCTGAGTTTCAGC