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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAGAGAGATGGGTAAAAACGCAGCTTGGAGCGTTAGCTCTTGTAAGCCCGGCAATGGCGTCACCACTCTCCGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaacgaaaaaaaaactaaagctcttatctttccctcattctttgtctctattcaattaaaggattcgacttttttttgtttctgaaattgtag

Basic information

species Arabidopsis thaliana
transcript AT2G18290.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G18290.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os05g50360.1 (Oryza sativa), 5'ss of exon 1
TAAGAGAGATGGGTAAAAACGCAGCTTGGAGCGTTAGCTCTTGTAAGCCCGGCAATGGCGTCACCACTCTCCGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaacgaa---aaaaaaactaaagctcttatctttccctcattctttgtctctattcaattaaag-gattcgactttt----ttttgtttctgaaattgtag
|  | |||||||  || |  || || |||||||| ||||| || ||||||||||| |||||| || | |||||||||||||| ||||| || || |||||||    |||||       |||   | |    | ||  |||   ||  |||   |     |     |||| | |||| |  ||||    |||| ||| ||   | |   
TGCGGGAGATGGCGAAGACGGCCGCCTGGAGCGTCAGCTCCTGCAAGCCCGGCAACGGCGTCGCCTCCCTCCGCGACGACAACCTCGACACCTACTGGCAgtcagtaaaacccgctccaaatctccatttgtttttccttcttctttttccgagggaggagattgttaatgtgatttgggttttgacattttttttttgggttag---

upper sequence: AT2G18290.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G25220.1 (Glycine max), 5'ss of exon 1
TAAGAGAGATGGGTAAAAACGCAGCTTGGAGCGTTAGCTCTTGTAAGCCCGGCAATGGCGTCACCACTCTCCGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaacgaaaaaaaaactaaagctcttatctttccctcattctttgtctctattcaattaaaggattcgacttttttttgtttctgaa-attgtag
|||  || ||||| || || || ||||||||||| || || || || ||||| || |||||  || ||||||| |||||||||||||| |||||||||||||  |     |    |      |  | |     |  |    | | | ||    |  ||| | ||  | |     | || || || ||| |    |||||||
TAACGGAAATGGGAAAGAAAGCCGCTTGGAGCGTGAGTTCCTGCAAACCCGGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgt-aatccctccttcacttgtttgcatcaacattgataagattaattttaaattgaattgattttgatgtgattagttattattatttttattcattgtag

upper sequence: AT2G18290.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA02G06190.3 (Glycine max), 5'ss of exon 2
TAAGAGAGATGGGTAAAAACGCAGCTTGGAGCGTTAGCTCTTGTAAGCCCGGCAATGGCGTCACCACTCTCCGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaacgaaaaaaaa-actaaagctcttatctttccctcattct-ttgtctct--attcaattaaaggattcgacttttt-tttgtttctgaaattgtag
|||  || ||||| || || || ||||||||||| || || || || ||||| || |||||  || ||||||| |||||||||||||| || ||||||||||        |    |     |||     | |      |  || ||    |||  | |  | | || |  |||||     ||||  | |  | ||||||      
TAACGGAAATGGGAAAGAAAGCCGCTTGGAGCGTCAGTTCCTGCAAACCCGGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACCTATTGGCAgtaactccctccctcactcttactgcgtgtttggatgatggctgatagaattgattttgaagtgaaattcaggataaactttttcatctaatgctgaaac-----

upper sequence: AT2G18290.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv04s0023g01940.t01 (Vitis vinifera), 5'ss of exon 1
TAAGAGAGATGGGTAAAAACGCAGCTTGGAGCGTTAGCTCTTGTAAGCCCGGCAATGGCGTCACCACTCTCCGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaacgaaaaaaaaactaaagctcttatctttccctcattctttgtctctattcaattaaaggattcgacttttttttgtttctgaaattgtag
|  | |||||||  || || || |||||||||||||| ||||| ||| | ||||||||||||     ||| ||||||||||| ||||| || ||||||||||            |      ||    ||||        ||||  ||||| ||||| |  |    ||     |  |||  ||| ||||| |         
TCCGTGAGATGGCCAAGAAGGCTGCTTGGAGCGTTAGTTCTTGCAAGGCTGGCAATGGCGTCCTTCTTCTTCGCGACGACAACCTCGATACCTATTGGCAgt------------actcttccttcccctctctctaaaacctc--tctttctctctttaaaccctaacttccctgcttgatttggtttcag---------

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|116467243|gb|EG509835.1|EG509835
EST:     GTCACCACACCTCCGCGACGACAATCTCGAGACTTATTGGCA                         ATCAGATGGGTTACAACCACATTTGATTAACATTCAATTCCAGAAGAAAGT
genomic: GTCACCAC-TCTCCGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaa ... gaaattgtagATCAGATGGGTTACAACCACATTTGATTAACATTCAATTCCAGAAGAAAGT
EST: gi|86079120|gb|DR374877.1|DR374877
EST:     CGCGACGACAATCTCGAGACTTATTGGCA                         ATCAGATGGGTTACAACCACATTTGATTAACATTCAATTCCAGAAGAAAGT
genomic: CGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaa ... gaaattgtagATCAGATGGGTTACAACCACATTTGATTAACATTCAATTCCAGAAGAAAGT
EST: gi|19877766|gb|AU238597.1|AU238597
EST:     GGCAATGGCGTCACCACTCTCCGCGACGACAATCTCGAGACTTATTGGCA                         ATCAGATGGGTTACAACCACATTTGATTAACATTCAATTCCAGAAGAAAGT
genomic: GGCAATGGCGTCACCACTCTCCGCGACGACAATCTCGAGACTTATTGGCAgttgagaaaa ... gaaattgtagATCAGATGGGTTACAACCACATTTGATTAACATTCAATTCCAGAAGAAAGT