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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctttctctcgcctcatcttagctttcatgttcatacaaacttgatgtaaacaggcagtgaaataacagacttgagataaaatactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATGCCCATGATTGATCAG

Basic information

species Arabidopsis thaliana
transcript AT2G18230.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G18230.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G37790.1 (Glycine max), 3'ss of exon 5
------gtgctttctctcgcctcatctta-gctttcatgttcatacaaacttgatgtaaacagg-cagtgaaataacagacttgagataaaatactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATGCCCATGATTGATCAG
       |||||    | |     ||| |  |||    |   ||      ||   |  || |   ||     || | | | ||||  |    | ||| | |||| || |||||  | || || ||||| ||||| ||||||||||| |||||||| |||||||| |||
gtaccaatgcttaaaattgttgtttctgatacttaagagaaaatgtttgtttccagccaaaatttcaactgtatta-aaatttgaacttttgttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATGCCTATGATTGACCAG

upper sequence: AT2G18230.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G07530.1 (Glycine max), 3'ss of exon 5
gtgctttctctcgcctcatc-ttagctttcatgttcatacaaacttgat-gtaaacaggcagtgaaataacagacttgagataaaa-------tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATGCCCATGATTGATCAG
||       ||      ||  ||   | | ||||| |  | ||  || | ||   ||| ||       ||| |  || | ||   |       | ||| | |||| || |||||  | || || ||||| ||||| ||||||||||| |||||||| |||||||| |||
gtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATGCCTATGATTGACCAG
















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|116390031|gb|EG432623.1|EG432623
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|116443156|gb|EG485748.1|EG485748
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|164044854|gb|ES067559.1|ES067559
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCA
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCA
EST: gi|164017123|gb|ES146359.1|ES146359
EST:     GTAC-GATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|164064113|gb|ES130650.1|ES130650
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCA
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCA
EST: gi|116390040|gb|EG432632.1|EG432632
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|116443161|gb|EG485753.1|EG485753
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|116390041|gb|EG432633.1|EG432633
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|116451434|gb|EG494026.1|EG494026
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|86075558|gb|DR371315.1|DR371315
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
EST: gi|116451435|gb|EG494027.1|EG494027
EST:     GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAG                         GAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG
genomic: GAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctc ... tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacttgatgtaaacaggcagtgaaataacagacttgagataaaatactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATGCCCATGATTGATCAG
                       aaataac  putative branch site (score: 2)
                                     agataaaata  TA-rich tract