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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgggtattaacttattatcatacatgcagagtaaaatctatccaacaaatgttatagattattctaaatctattgcagAAAGGAGTGCGTCTTTTCCTCCAATGGGCTATGATGCAAGGTGTCGCGATGCTTCTGCAAAATAGATATCAGCGCCAAAGATTATACACTCGCATTGCAC

Basic information

species Arabidopsis thaliana
transcript AT1G33230.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G33230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA10G44190.3 (Glycine max), 3'ss of exon 5
------------gtattgggtattaacttattatcatacatgcagagtaaaatctatccaacaaatgttatagattattctaaatctat-tgcagAAAGGAGTGCGTCTTTTCCTCCAATGGGCTATGATGCAAGGTGTCGCGATGCTTCTGCAAAATAGATATCAGCGCCAAAGATTATACACTCGCATTGCAC
            |   || | ||  | || || || | | |   |  |||    |||       |   ||| | || |   ||   |   |||||| ||| || |  ||||| || || ||||||||||||||||| || || |||||| |||||||||||||||| ||||||||| | || ||||| |||||| 
gttagtttcctagccctgcgcatacagttttt-tcttcctttttgtttaa---ttattttgtgta-actattgtttgtctcaataatgcatgcagAGAGGTGTACAACTTTTTCTACAGTGGGCTATGATGCAAGGAGTTGCAATGCTTTTGCAAAATAGATATCAACGCCAAAGACTTTATACTCGTATTGCAT

upper sequence: AT1G33230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 6
------------gtattgggtat-taacttattatcatacatgcagagtaaaatctatccaacaaatgttatagattattctaaatctat-tgcagAAAGGAGTGCGTCTTTTCCTCCAATGGGCTATGATGCAAGGTGTCGCGATGCTTCTGCAAAATAGATATCAGCGCCAAAGATTATACACTCGCATTGCAC
            |   || | || ||  || || |      |  |   | ||   | |     || | || |   || |   ||   |   |||||| ||| || |  ||||| || || ||||||||||||||||| || || |||||| ||||||| |||||||| ||||||||| | || ||||| |||||| 
gttggtttcctagccctgtgcatatagttttttcttccttttttatttttaatcatgttgtgtaactattgt---ttgtctcaataatgcatgcagAGAGGTGTACAACTTTTTCTACAGTGGGCTATGATGCAAGGAGTTGCAATGCTTTTGCAAAACAGATATCAACGCCAAAGACTCTATACTCGTATTGCAT

upper sequence: AT1G33230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 6
gtattgggtattaacttattatcatacatgcagagtaaaatctatccaacaaatgttatagattattctaaatctattgcagAAAGGAGTGCGTCTTTTCCTCCAATGGGCTATGATGCAAGGTGTCGCGATGCTTCTGCAAAATAGATATCAGCGCCAAAGATTATACACTCGCATTGCAC
      | || |   ||   || ||| ||   || |||| | | |   |   || | ||||     | |||||||  |||||| ||| || |  |||||||| |||||||||||||||||||| || || ||||| || |||||||||||||| ||||| ||| | || |||||||||||| 
------gttactgcatttccattataaatt--gattaaatttttttatatttatttgataggaccatttaaatcttgtgcagAGAGGGGTACAACTTTTCCTACAATGGGCTATGATGCAAGGAGTTGCTATGCTACTACAAAATAGATATCAACGCCAGAGACTTTATACTCGCATTGCAT

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|164144240|gb|ES090923.1|ES090923
EST:     TCAGTCTCACTTGGGAAATCAAAGGTCAACCAAACTGCGTTCAGAAGCAG                         AAAGGAGTGCGTCTTTTCCTCCAATGGGCTA
genomic: TCAGTCTCACTTGGGAAATCAAAGGTCAACCAAACTGCGTTCAGAAGCAGgtattgggta ... tctattgcagAAAGGAGTGCGTCTTTTCCTCCAATGGGCTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcagagtaaaatctatccaacaaatgttatagattattctaaatctattgcagAAAGGAGTGCGTCTTTTCCTCCAATGGGCTATGATGCAAGGTGTCGCGATGCTTCTGCAAAATAGATATCAGCGCCAAAGATTATACACTCGCATTGCAC
                                      ttctaaa  putative branch site (score: 2)
                       aaatgttatagattat  TA-rich tract