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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGCTCGGGAAAGCCAATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattgactgcctcaagtcaattgtactctgaagagaaggaaaaaatctgttttaaattgtttcggtcgataatttttatag

Basic information

species Arabidopsis thaliana
transcript AT1G20260.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G20260.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 5'ss of exon 6
CCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGCTCGGGAAAGCCAATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattgact-gcctcaagtcaattgtactctgaagaga-aggaaaaaatctgtt-ttaaattgtttcggtcgataatt---tttatag---------------------------------------------
||||| ||| | || |||||||| ||||| ||||| || || ||||| || |||||||||||||| ||||||||||||||||| ||| | ||||| |||||| ||  ||  ||    ||| ||  | ||   |   ||   | ||  ||     |||| ||  ||   | |||  | |   |    |||||                                              
CCTGTCTCACTTGATATGCTTGGGCGCATTTTTAATGGATCTGGAAAACCCATTGATAATGGCCCACCTATTTTGCCAGAGGCCTACTTGGATATCTCTGgtaagtttttgctcaattcaggtgcactgctatggaaattcatagttaagtgcatgttcttttatcagtacggatggtggctaaacttatatttctcttctgataatattaataatgtcttccgatgtttattccag

upper sequence: AT1G20260.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 6
CCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGCTCGGGAAAGCCAATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattgactgcctca-agtcaattgtactctgaagagaaggaaaaaatctgttttaaattgtttcggtcgataatttttatag-----------
||||| ||| |||| |||||||||||||| ||||| || || ||||| || |||||||||||||| || ||| |||||||||| ||||| |||||||||||| || | ||   |    | | | | || |   |  |||  | |||||| || |  | | |  ||  |   |    || | ||               
CCTGTATCACTGGATATGCTTGGCCGCATTTTTAATGGTTCTGGAAAACCCATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatgctaggaagataatgatttattaccaaaagctagggaaaagattttatgttatctggatatataataaactcttccttgtctttcatag
















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|116471926|gb|EG514518.1|EG514518
EST:     AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTG                         GAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGGTGATACAAA
genomic: AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattg ... atttttatagGAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGATGATACAAA
EST: gi|116483049|gb|EG525641.1|EG525641
EST:     AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTG                         GAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGATGATACAAA
genomic: AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattg ... atttttatagGAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGATGATACAAA
EST: gi|164195239|gb|EL968704.1|EL968704
EST:     TTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTG                         GAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGATGATACAAA
genomic: TTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattg ... atttttatagGAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGATGATACAAA
EST: gi|116424900|gb|EG467492.1|EG467492
EST:     AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTG                         GAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGATGATACAAA
genomic: AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattg ... atttttatagGAAGTTCAATCAACCCCAGTGAAAGAACCTACCCTGAAGAGATGATACAAA
EST: gi|152038085|gb|BP807684.2|BP807684
EST:     AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATAC-TTGATATTTCTG                         GAAGT-CAATCAACCCCAGTGAAAG
genomic: AATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattg ... atttttatagGAAGTTCAATCAACCCCAGTGAAAG