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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTGATGTAAGAGAGCAGATATACAAAATGGCTTCTGTGAATCTTTGTTCCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaaacatctatatgactttatcatcacaattgattcagtttccacctgttggcttggacttgcacatcgataattgaccttaatagcttttattaaatttgatcag

Basic information

species Arabidopsis thaliana
transcript AT1G17290.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G088064_T02 (Zea mays), 5'ss of exon 4
TTCTGATGTAAGAGAGCAGATATACAAAATGGCTTCTGTGAATCTTTGTTCCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaaacatctatatgactttatcatcacaattgattcagtttccacctgttggcttggacttgcacatcgataattgacc--ttaatagcttttattaaatttgatcag
| ||   |||||||||||||| ||||| || ||||| ||||| || || ||||| ||| |||||||||| ||||| |||||| ||||||  ||||| ||||| |       | |||||             ||||  || | || |  ||||   | | | | | | | ||    ||| | ||  |||| |    ||  |  |||    |||
TGCTCCAGTAAGAGAGCAGATCTACAAGATAGCTTCAGTGAACCTATGCTCCAATATCACTGGTCAAATCCTTGCGAGCCTCGTCATGAATCCACCAAAGgtctg------ccatatgg------------aattctttaaattacgccctg---gttggaattaggaaatgccaaatcgtccagttaaaaatcattgctttattct-ccag

upper sequence: AT1G17290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G05130.1 (Glycine max), 5'ss of exon 12
TTCTGATGTAAGAGAGCAGATATACAAAATGGCTTCTGTGAATCTTTGTTCCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaa----acatctatatg-actttatcatcacaattgattcagtttccacctgttggcttggacttgcacatcgataattgaccttaatagcttttattaaatttgatcag
| | || || || || || ||||| ||| |||| ||||| || ||||| || || |||||||||||||||||||| ||| |  ||||||| |||||||||||  |       ||||| || | |   | || |      | ||  | |    |    || | ||| | | |   |  ||  ||||| | ||||   | |||  |           
TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactccttgcatctttaagtaaaatttccttttgggtaataaattaataattcttttgtttgaa-tagttaaaagagcattgaacataat---tcttacca-----------

upper sequence: AT1G17290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA16G01630.3 (Glycine max), 5'ss of exon 12
TTCTGATGTAAGAGAGCAGATATACAAAATGGCTTCTGTGAATCTTTGTTCCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaaacatctatatgactttatcatcacaattgattcagtttccacctgttggcttggacttgcacatcgataattgaccttaatagcttttattaaatttgatcag
| | || || || || || ||||| ||| |||| ||||| || ||||| || || |||||||||||||||||||||||| |  ||||||| || || ||||| |||    ||  |    |||||  |  | ||||   |    ||     |  |   |      |    || | |||  || | |   | |      |   || ||    
TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCTAGCTTAGTCATGAGTCCTCCTAAGgt-taac---tccttgcatcttta--agtataattttcttgtgttgtgggtagtaattctttagtttgaatagttaaaagagcattg-aacacccgcttggttagag---

upper sequence: AT1G17290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0002g00340.t01 (Vitis vinifera), 5'ss of exon 12
TTCTGATGTAAGAGAGCAGATATACAAAATGGCTTCTGTGAATCTTTGTTCCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaaacatctatatgactttatcatcacaattgattcagtttccacctgttggcttggacttgcacatcgataattgaccttaatagcttttattaaatttgatcag
  |||||||  | || |||||||||||| |||| ||||||||||||||||| || ||| |||||||||||||||| |||||  | ||||||||||||||||| |||    | | | |  || ||| |    |    | ||  |       | ||   ||     |    ||  |||  |   |||| |  |  ||   | |   ||    
CGCTGATGTGCGGGAACAGATATACAAAGTGGCATCTGTGAATCTTTGTTCTAATATCACTGGTCAAATTCTTGCAAGCCTTGTGATGAGCCCACCCAAGgt-taa----tttttttccctctataaat-tagcaaactctttgcttctttttttctttttgtctatttatttatatatttacttatttaccatttggagaccaga----

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|301501574|gb|HO207114.1|HO207114
EST:     CCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAG                         CCTGGTGACGACTCCTATGAATCATACATAGCAGAGAAGGATGGAATTCTC
genomic: CCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaaaca ... atttgatcagCCTGGTGACGACTCCTATGAATCATACATAGCAGAGAAGGATGGAATTCTC
EST: gi|124880463|gb|EH959365.1|EH959365
EST:     AGCCTCATCATGAGCCCACCCAAG                         T
genomic: AGCCTCATCATGAGCCCACCCAAGgtataaaaca ... atttgatcag-
EST: gi|124880463|gb|EH959365.1|EH959365
EST:     AGCCTCATCATGAGCCCACCCAAG                         T
genomic: AGCCTCATCATGAGCCCACCCAAGgtataaaaca ... atttgatcag-
EST: gi|116471643|gb|EG514235.1|EG514235
EST:     CCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAG                         CCTGGTGACGACTCCTATGAATCATACATAGCAGAGAAGGATGGAATTCTC
genomic: CCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaaaca ... atttgatcagCCTGGTGACGACTCCTATGAATCATACATAGCAGAGAAGGATGGAATTCTC