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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttactggctgaatgatagctgtatctttattttgcatatatgttttatctctatacctgagaagtgcttctatgttgtacttaataacagATTGAAGATTGTCGCACGCGTTATAACGGTGATGCAGACCATCATCAACGGCGTAAAAAGTTCAGTTTTCCGTCTCGATTATTATGTGGGGATTGTTTTG

Basic information

species Arabidopsis thaliana
transcript AT3G20650.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20650.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 4
gtaagtttactggctgaatgatagctgtatctttattttgcatatatgttttatctctatacctgag--aagtgcttctatgttgtacttaataa------cagATTGAAGATTGTCGCACGCGTTATAACGGTGATGCAGACCATCATCAACGGCGTAAAAAGTTCAGTTTTCCGTCTCGATTATTATGTGGGGATTGTTTTG
    |||   |||   ||   |   |   |  | || |   |  ||| | | ||    ||  |||     |  |  |     ||| | | || ||      |||||  | || || || || ||||| ||||||||||| ||||||||||| || ||||||||||| |  |||||  ||||  |  ||||||| ||||||| ||
---cgttacatggtgaaacactgtataccttgtcatgtcaaac-tatttgtaattatcatgtctgtcctcacggtctgctcattgaattcaacaatctttccagATCAAGGACTGCCGGACACGTTACAACGGTGATGCTGACCATCATCAGCGACGTAAAAAGTTTACATTTCCTGCTCGCCTTATATGTGGAGATTGTTATG

upper sequence: AT3G20650.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G22390.1 (Glycine max), 3'ss of exon 4
gtaagtttac-tggctgaatgatagctgtatctttattttg-catatatgttttatctctatacctgagaagtgcttctatgttgtacttaataa------cagATTGAAGATTGTCGCACGCGTTATAACGGTGATGCAGACCATCATCAACGGCGTAAAAAGTTCAGTTTTCCGTCTCGATTATTATGTGGGGATTGTTTTG
   | |  |  | | |  ||| |       | | ||  ||| ||| |      |||   |||   | |   |||  ||     || | | || ||      |||||  |||| ||  | || ||||| ||||||||||| || ||||||||||| ||||||||||| |  |||||  ||||  |  ||||||| ||||||| ||
---aatccatgttgttacatggtgaaacattttataccttgtcatgt-caacctattcatatttatcatgtgtgtgtcctcactgaattcaacaatctttccagATCAAAGACTGCAGAACACGTTACAACGGTGATGCTGATCATCATCAACGACGTAAAAAGTTTACATTTCCTGCTCGCCTTATATGTGGAGATTGTTATG

upper sequence: AT3G20650.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv19s0014g04740.t01 (Vitis vinifera), 3'ss of exon 4
-------gtaagtttactggctgaatgatagctgtatctttatt-ttgcatatatgttttatctctatacctgagaagtgcttctatgttgtacttaataacagATTGAAGATTGTCGCACGCGTTATAACGGTGATGCAGACCATCATCAACGGCGTAAAAAGTTCAGTTTTCCGTCTCGATTATTATGTGGGGATTGTTTTG
       | |||  |  ||  |   |        | ||| |  | |||||| | || | |   | || || ||   | |  || | | | | |  ||   |||||| ||||| || || || || ||||| ||||| |||||||||||||||||||| ||||||||||  |||||| ||||  |  ||||||| ||||||||||
aggcatggcaagaattttgaatttttttctcaattgtctctgctgttgcatgtttgctgt---tataaacttgccta-tcattgtgtttggcaactatgtacagATAGAAGACTGCCGTACACGCTATAATGGTGACGCAGACCATCATCAACGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTGTTTTG

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|86084647|gb|DR380406.1|DR380406
EST:     GTACTATGTTGGAATTGATATTGCTGAAGGGTCG                         ATTGAAGATTGTCGCACGCGTTATAACGGTGATGCAGACCATCATCAACGG
genomic: GTACTATGTTGGAATTGATATTGCTGAAGGGTCGgtaagtttac ... ttaataacagATTGAAGATTGTCGCACGCGTTATAACGGTGATGCAGACCATCATCAACGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatgttttatctctatacctgagaagtgcttctatgttgtacttaataacagATTGAAGATTGTCGCACGCGTTATAACGGTGATGCAGACCATCATCAACGGCGTAAAAAGTTCAGTTTTCCGTCTCGATTATTATGTGGGGATTGTTTTG
                                           acttaat  putative branch site (score: 4)
                                          tacttaataa  TA-rich tract