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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgcttatctttcaactttctgcttctgttattttattattatagctgtggtcataatttgcttttgttatgttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG

Basic information

species Arabidopsis thaliana
transcript AT3G15980.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------gtattgcttatctttcaactttctgcttctgttattttatta--ttatagctg-tggtcataatttgcttttgttatgttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG
                                                                               |||   | | |   ||  |    ||  ||| | | | ||   || | |||  |     |||  || | || | || |||||||||| | ||| |||| ||| ||||||||||||| |||| ||| ||||||||||| || || |||||
gtactaattgttttttgttctgattcaatgtttatttgtttttggttgccgacaaattgttgatttcgttacctgcgagattagatttgtcggaaactaagcctagtgtgaatgttttgctttctggctacttaatctaacgtgttattttgat-ttttgatcagCGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATG

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------------gtattgcttatctttcaactttctgcttc------tgtta---ttttatta--ttatagctgtggtcataatttgcttttgttatgttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG
                                                                               | ||   |   ||  |  | |||||  |      ||  |   |||||| |  || | ||||     |    ||| ||| || || ||| || ||| ||||| |||| ||| ||||||||||||| || ||||| ||||| ||||| || ||||||||
gtactcttcttctgtcatttgatttgaggtttattttggtttggttgctgagaatggtttgattaccttgtcagcgagattttatgtgatttagatttctctgccaccaagcatggcagagttttataactttctggctgctcgaactgattgttttcgtaatattt-gaacagCGAAAGCTTGCCCAAAGATCAGAGAGAGTAAAGTCTGTGGATCTACATCCAACAGAACCATG

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------------gtattgcttatctttcaactttctgcttctgtta--ttttatta--ttatagctg-tggtcataatttgcttttgttatgttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG
                                                                                     ||  |   ||| | ||  |   |       |     |||||  |  || | || | |     | ||||| ||| || || ||| || ||| ||||| |||| ||| ||||||||||||| || ||||| ||||| ||||| || ||||||||
gtactcttcttctggcatttgattcgaggtttattttggtttggttgctgagaattgtttgattagcttttcagcgaccttttatgtgatttgtatttctctgcaaccaagcatggcagagttttacaactttttggcggcttaaactgatttgttttcgtaatattt-gaacagCGAAAGCTTGCGCAAAGATCAGAGAGAGTAAAGTCTGTGGATCTACATCCAACAGAACCATG

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------gtattgcttatctttcaactttctgcttctgttattttatta--ttatagctgtggtcataatttgcttttgtt-atgttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG
                                      || |   | | |     |||| |  | | ||||| |  |||  ||  |   || ||     || |||     | |  | |||||||||||||  |||| ||| |||| || ||||| ||||| || ||||| ||||| |||||||||||
gtatttatgttcatccacttgaatttatcttgttaggctaataaatgtttccatgctttgtaatccagttatatctttagttttcaaaagttgtagcgtttagctaacaatgacctgttgatcagAGAAAACTTGCACAAAGATCTGAAAGAGTAAAATCAGTGGATCTACATCCAACTGAACCATG

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------gtattgcttatctttcaactttctgcttctgt--tattttattattatagctgtggtcataatttgcttttgttatgttttg-atcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG
                             |  |   ||    | |  | ||   || | |  | ||| ||  ||  ||   || |   | ||||||| || ||  ||||| ||||||| ||  | || ||| ||||||||||||| |||||||| |||||||||||  |||| |||||
gtacgcttgtttattccctttgaattgatttctatgtacagattagatctcgatttgtttaatgtttaatagttgaagtattgatgtcattttgcttctggtaaattttggatcagAGGAAACTCGCGCAAAGATCAGAGAGAGTAAAATCTGTGGATCTGCATCCATCTGAGCCATG

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|116382436|gb|EG425028.1|EG425028
EST:     CATGCCTCTCAGACTAGATATCAAG                         AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT
genomic: CATGCCTCTCAGACTAGATATCAAGgtattgctta ... ttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT
EST: gi|116382435|gb|EG425027.1|EG425027
EST:     CATGCCTCTCAGACTAGATATCAAG                         AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT
genomic: CATGCCTCTCAGACTAGATATCAAGgtattgctta ... ttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT
EST: gi|116382437|gb|EG425029.1|EG425029
EST:     CATGCCTCTCAGACTAGATATCAAG                         AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT
genomic: CATGCCTCTCAGACTAGATATCAAGgtattgctta ... ttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT
EST: gi|116382434|gb|EG425026.1|EG425026
EST:     CATGCCTCTCAGACTAGATATCAAG                         AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT
genomic: CATGCCTCTCAGACTAGATATCAAGgtattgctta ... ttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttattttattattatagctgtggtcataatttgcttttgttatgttttgatcagAGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG
     tttattattatagct  TA-rich tract