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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgtcgtcctagaatactatagtatttgtcacttggttaatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAA

Basic information

species Arabidopsis thaliana
transcript AT1G51720.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA08G20930.2 (Glycine max), 3'ss of exon 11
gtatttgtcgtc-ctagaatactatagtatttgtcact-tggttaatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAA
|| | | || |  ||    |    |  | ||||  | | ||  ||||  ||  |  | |     || || || |  | ||| ||||||||||| |||||||||||  || | ||||| | |||||||  ||| ||||||| ||||||||||||||| |||||| | |||||||| |||||||||
gtgtgtatcatttctgttgtctgtttatgtttgctattatgtataattttactgtcctcgttcataaat-tgacaat-atgtagAGACTATTCAAAGACCTATGCTCGGTCCAAATATTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTGCCTGTGCTTCACAGAATGAA

upper sequence: AT1G51720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA07G01510.2 (Glycine max), 3'ss of exon 11
---------gtatttgtcgtcctagaatactatagtatttgtcacttggttaatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAA
          |   ||| |||     || || || | ||  |    ||  ||||  ||  |  |       || || |      |||| ||||||||||| |||||||||||  || | ||||| | |||||||  ||| || |||| ||||||||||||||| |||||| ||||| |||| |||||||||
gtttgtatcattcctgttgtctgtttatgctttattcttgctattatgtataattttactgtccttgttcataaatttac--aatatgtagAGACTATTCAAAGACCTATGCTCGGTCCAAATATTATGATGAAGCAAAACCATGGAGTGAAAGGTGTGATGTTGCATTTGCTTGTACTTCACAGAATGAA

upper sequence: AT1G51720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA16G32870.1 (Glycine max), 3'ss of exon 2
-----------gtatttgtcgtcctagaatactatagtatttgtcact-tggttaatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAA
            | ||||| |||     || || || |  |||  | | ||  ||||   |  |  |    ||  | |  |      |||| ||||||||||| |||||||||||  || | | ||| | |||||||  ||| || |||||||||||||||||||| |||||| |  ||||||| |||||||||
gtttgtgtataatttttgttgtctgtttatgcttta-tgcttgctattatgtataatttcactgtcctt--cttcataaattgacaatatgtagAGACTATTCAAAGACCTATGCTCGGTCCAGATATTATGATGAAGCAAAACCGTGGAATGAAAGGTGTGATGTTGCATTTGCAGGTGCTTCACAGAATGAA

upper sequence: AT1G51720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA09G28010.1 (Glycine max), 3'ss of exon 2
------------------gtatttgtcgtcctagaatact--atagtatttgtcacttggt-taatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCG----AAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAA
                   | | ||| |||     || ||  ||  |   | | |  |||| ||||  ||  |  |       || || || |  | ||||||||||||||| ||||||| |||  | |||    | ||| | |||||||  ||| || |||||||||||||||||||| |||||| ||| |||||| |||||    
gtttacggttagagtatcatttctgttgtctgtttatgctttatgcttcatattatgtggtataattttactgtccttgttcataaat-tgacaat-atgcagAGACTATTCAAAGACCTGTGCTCGTGCGCTCCAGATATTATGATGAAGCAAAACCGTGGAATGAAAGGTGTGATGTTGCATTTGCTTATGCTTCACAGAA----

upper sequence: AT1G51720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 10
----------------------------------------gtatttgtcgtcctagaatactatagtatttgtcacttggttaatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAA
                                          |||| |  |   ||||     || |      || ||| | ||    |    |  |  ||  | || |||    | |||||||||||||| || || |||||  |  | || |||| |||||||  ||| ||||||| ||||||||||||||| |||||||||||||||||||||||||||
gttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaac----tacttcacagcatttgat-aacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA

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|125213841|gb|EL228604.1|EL228604
EST:     TGCATTCTTGAGAGATATAAAATCTCAACAGAGAAGTCTGAG                         AGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGA
genomic: TGCATTCTTGAGAGATATAAAATCTCAACAGAGAAGTCTGAGgtatttgtcg ... tgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtcacttggttaatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAA
           ggttaat  putative branch site (score: 4)
             ttaatcatatagat  TA-rich tract