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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatcttgcacctttaaactaattgtacttagatcttttcagacctctgacctttggatttaaccatgactagtagCTGCATACCTTCCCAGAGGGAAAGGTGTTTCAAGATGATGTTCCTATAAGACGACTTAAATGGGGAACTGCAAGCCTCATCGCCCGTTCCCCAGTTACCC

Basic information

species Arabidopsis thaliana
transcript AT1G78690.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G78690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G21310.1 (Glycine max), 3'ss of exon 3
--------------------gtatgttatcttgcacctttaaa----ctaattgtacttagatcttttcagacctctgacctttggatttaaccatgactagtagCTGCATACCTTCCCAGAGGGAAAGGTGTTTCAAGATGATGTTCCTATAAGACGACTTAAATGGGGAACTGCAAGCCTCATCGCCCGTTCCCCAGTTACCC
                    || | ||||    ||  |  |||     | |||     || |      | ||  | | |  | || ||||    ||| |    |||| ||||| || ||||| ||||| |||| |||||| ||||| |||||||| ||  | |||||||||||||| ||||| || |  ||  | ||  | || |
tagatagatgctgccaaacggtgttttattgcccaaatgaaaaattctttattactagtaaagtagaactgatatatcatttctgaatttg-ttatggc----agCTTCATACTTTTCCAGAAGGAAAAGTGTATCAAGAAGATGTGCCTATAAGGCGGTTGAAATGGGGAACTGCTAGCCTAATTGTTCGAGCACCTATAACTC

upper sequence: AT1G78690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G32750.1 (Glycine max), 3'ss of exon 2
-------------gtatgttatcttgcacc-tttaaactaattgtacttagatcttt-----tcagacctctgacctttggatttaaccatgactagtagCTGCATACCTTCCCAGAGGGAAAGGTGTTTCAAGATGATGTTCCTATAAGACGACTTAAATGGGGAACTGCAAGCCTCATCGCCCGTTCCCCAGTTACCC
             | ||  |   ||  ||     |||       | |||   |  |        ||| ||   |  |     |||||       | | |||||||||| || ||||| ||||| |||| |||||| ||||  |||||||| | | | |||||||||||||| || || || |  ||  | ||  | || |
tagatagatgctgggatactgggttttactacccaaatgggaaattctttattactagtaaagtagaactgatatatccttttttaatttgttatggcagCTGCATACTTTTCCAGAAGGAAAAGTGTATCAAGAAGATGCACCTATAAGGCAATTGAAATGGGGAACTGCTAGTCTAATTGTTCGAGCACCTATAACTC
















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|301501666|gb|HO207206.1|HO207206
EST:     ACCAAGAAAACATGAATGAAGCTCTCCAGCGATTAAAAGATGGATCTTGG                         CTGCATACCTTCCCAGAGGGAAAGGT
genomic: ACCAAGAAAACATGAATGAAGCTCTCCAGCGATTAAAAGATGGATCTTGGgtatgttatc ... tgactagtagCTGCATACCTTCCCAGAGGGAAAGGT
EST: gi|124727324|gb|EH818726.1|EH818726
EST:     AGCTCTCCAGCGATTAAAAGATGGATCTTGG                         CTGCATACCTTCCCAGGGGGAAAGGTGTTTCAAGATGATGTTCCTATAAGA
genomic: AGCTCTCCAGCGATTAAAAGATGGATCTTGGgtatgttatc ... tgactagtagCTGCATACCTTCCCAGAGGGAAAGGTGTTTCAAGATGATGTTCCTATAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtacttagatcttttcagacctctgacctttggatttaaccatgactagtagCTGCATACCTTCCCAGAGGGAAAGGTGTTTCAAGATGATGTTCCTATAAGACGACTTAAATGGGGAACTGCAAGCCTCATCGCCCGTTCCCCAGTTACCC
                                    atttaa  TA-rich tract