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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGAGATTGCTATTGGTACTCCACCGCAGAAGTTCACTGTCATTTTTGATACCGGAAGCTCTAACCTTTGGGTGCCATCAGGAAAATGTTTTTTCTCGgtaagctttacaccatttgttagtttttagtttaagagataaaacttattgttttgttcccgttgttatctag

Basic information

species Arabidopsis thaliana
transcript AT1G62290.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G62290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G102933_T01 (Zea mays), 5'ss of exon 1
TGGTGAGATTGCTATTGGTACTCCACCGCAGAAGTTCACTGTCATTTTTGATACCGGAAGCTCTAACCTTTGGGTGCCATCAGGAAAATGTTTTTTCTCGgtaagctttacaccatttgttagtttt-------tagtttaagagataaaacttattgttttgttcccgttgttatctag---------------------------------
||| ||||| |   | || || || |||||||||||||| ||||| || || ||||| ||||| ||||| |||||||| ||    || || | |||||||||  |   |   || ||  || |  |        |  |||||| |        | || |||| |||  | |   |                                      
TGGGGAGATCGGCGTCGGGACGCCGCCGCAGAAGTTCACCGTCATCTTCGACACCGGCAGCTCCAACCTCTGGGTGCCGTCCTCCAAGTGCTATTTCTCGgtgcgtcctcgtccgttccttcgcctcgtcgaggttttttaagggtctggctgtgttttttttttcgtgctaagactggacactggagtgtgtttttcggttatgtgatgcag

upper sequence: AT1G62290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G11670.1 (Glycine max), 5'ss of exon 1
TGGTGAGATTGCTATTGGTACTCCACCGCAGAAGTTCACTGTCATTTTTGATACCGGAAGCTCTAACCTTTGGGTGCCATCAGGAAAATGTTTTTTCTCGgtaagctt--tacaccatttgttagtttttagtttaagagataaaacttattgttttgttcccgtt--gttatctag----------------------------
 ||||| || || |||||||| || || |||||||||||||| |||||||| ||||| ||||||||  | ||||||||||||   |||||||  |||||||| || ||  |   | |||  | |   | || |  | | |   |   |  || |||  | | | ||  |  | || |                            
CGGTGAAATAGCCATTGGTACCCCTCCTCAGAAGTTCACTGTGATTTTTGACACCGGTAGCTCTAATTTGTGGGTGCCATCATCCAAATGTTACTTCTCGgtgagattgcttttcaattcataaccgtctaatcaatgcgtgtaggttctttttttcctcctcattttggcaacttgttcatggtgtttttgcatgttggtgcag

upper sequence: AT1G62290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA09G00810.1 (Glycine max), 5'ss of exon 1
TGGTGAGATTGCTATTGGTACTCCACCGCAGAAGTTCACTGTCATTTTTGATACCGGAAGCTCTAACCTTTGGGTGCCATCAGGAAAATGTTTTTTCTCGgtaagctt-tacaccatttgttagtttttagtttaagagataaaacttattgttttgttccc---gttgttatctag---------------------------
|||||| || || |||||||| || || |||||||||||||| |||||||| ||||| ||||||||  | |||||||| |||   |||||||  |||||||| || ||       | ||  || |       |||  |        ||||| |||| | ||     ||| || || |                           
TGGTGAAATAGCCATTGGTACCCCTCCTCAGAAGTTCACTGTGATTTTTGACACCGGTAGCTCTAATTTGTGGGTGCCGTCATCCAAATGTTACTTCTCGgtgagattgctttttaattcataataaccgtcttatcaat--gcgtttatttttttatccctcagtttggtaacttgttcatggtgttttgcatgttggtgcag

upper sequence: AT1G62290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv10s0116g01210.t01 (Vitis vinifera), 5'ss of exon 2
TGGTGAGATTGCTATTGGTACTCCACCGCAGAAGTTCACTGTCATTTTTGATACCGGAAGCTCTAACCTTTGGGTGCCATCAGGAAAATGTTTTTTCTCGgtaagctttacaccatttgttagtttttagtttaagagataaaacttattgttttgttcccgttgttatctag----------------------------------------------
|||||| |||| |||||||||||| || || | ||||||||| || ||||| || || ||||| ||||| ||||| ||||||   || || | ||||||||| |||||       | |||    | | |   || |  |   ||| | || ||||         |||   | |                                              
TGGTGAAATTGGTATTGGTACTCCCCCTCAAACGTTCACTGTAATCTTTGACACTGGTAGCTCAAACCTGTGGGTTCCATCATCCAAGTGCTATTTCTCGgtgagcttccatatttctgtggaatgtgacaatatgttagtgaacatttttttttccatttcaagttggttggaagcaagagaatcatcatgtgtttgaattttgtcattttggtgcag

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|124821879|gb|EH906745.1|EH906745
EST:     CGGAAGCTCTAACCTTTGGGTGCCATCAGGAAAATGTTTTTTCTCG                         CTGTCTTGTTACTTTCATGCTAAGTACAAGTCCTCGCGATCAAGCACATAT
genomic: CGGAAGCTCTAACCTTTGGGTGCCATCAGGAAAATGTTTTTTCTCGgtaagcttta ... tgttatctagCTGTCTTGTTACTTTCATGCTAAGTACAAGTCCTCGCGATCAAGCACATAT