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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatgttattttgctatcttcctaacagttgttcaagagctggacttaacatggagcccatctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAG

Basic information

species Arabidopsis thaliana
transcript AT2G37500.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G37500.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 3'ss of exon 11
-----------------------gtatgtatgttattttgctatcttc--ctaacagt-tgttcaagagctggacttaacatggagcccatctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAG
                       |  | | || | | ||  ||| | |  | ||| ||   |  ||  |    |  |            ||||  |  |||| |||||||| ||||| ||||| ||||| ||||||||||| ||||| |||||||| || |||
atcttattttcttcttggttgcagagtttttgatgtatttttatttacagcaaactgtacctataaaggaaaaagatgctgacctatttatctcctgtagGTAATGCAAGGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGTCTAATTGAG

upper sequence: AT2G37500.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 11
---------------------gtatgt-atgttattttgctatcttcctaacagt---tgttcaagagctg-gacttaacatggagcccatctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAG
                      ||  |   |  || |   |   |    || |||   || |||  |  || ||  |     |  |    |  ||| ||||| |||||||| ||||| |||||||||||||||||||| |||||||| ||||| ||| | |||
cctttagatcttcttccatggttacctcgagacatgtaatttattcttcaaaagtgcctggtcagaaaatgtgaagttttgagttgattgttctttccagGTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAG

upper sequence: AT2G37500.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA13G19450.1 (Glycine max), 3'ss of exon 12
---------------------gtatgtatgttattttgctatcttcctaacagttgttca-----agagctggacttaacatggagcccatctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAG
                      |    |||| |   |  | | ||| | | |  ||  ||     | |    ||  |     |  |    |  ||| ||||| |||||||| ||||| |||||||||||||||||||| ||||| || ||||| ||| | |||
gtcatcctttattccaacctccttcagatgtaagcataatttattcttcaaaagtgcccagtcagaaaatgtgaagttttgagttgattgttctttccagGTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGGGAAGGAGCAACATGCCTCGTTGAG

upper sequence: AT2G37500.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------gtatgtatgttattttgctatcttcc-taacagttgttcaagagctggac--ttaacatggagcccatctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAG
                         | |  ||   || | ||||  |    | |  |||      | |||| |  ||   |   |       |||||||||| ||||| || ||||| ||||||||||| |||||||| ||||| || ||||| || || |||
aagtcagttggctcatgaggtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG

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|116428311|gb|EG470903.1|EG470903
EST:     CATCTTTGAACTGTAAAGAAGCTGCACAGCTTCAGGCATGCCTCGATGCG                         GTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACA
genomic: CATCTTTGAACTGTAAAGAAGCTGCACAGCTTCAGGCATGCCTCGATGCGgtatgtatgt ... tctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACA
EST: gi|116428312|gb|EG470904.1|EG470904
EST:     CATCTTTGAACTGTAAAGAAGCTGCACAGCTTCAGGCATGCCTCGATGCG                         GTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACA
genomic: CATCTTTGAACTGTAAAGAAGCTGCACAGCTTCAGGCATGCCTCGATGCGgtatgtatgt ... tctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttcctaacagttgttcaagagctggacttaacatggagcccatctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAG
                                         cccatctttttc  CT-rich tract
                                            atcttttt  TA-rich tract