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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACATgtgagcaacttttataattccattatagactttgtttctgatttttcagcatgtttctcggatacaaaaaaaataggacagcgtttgctatattctgcttattataaattttttttttttgatgaacggcttcaatttttctggtttactgaag

Basic information

species Arabidopsis thaliana
transcript AT1G51710.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os01g36930.1 (Oryza sativa), 5'ss of exon 10
TCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACATgtgagcaacttt--tataattcca-ttatagactttgtttctgatttttcagcatgtttctcggatacaaaaaaaatag-----------gacagcgtttgctatattctgcttattataaattttttttttttgatgaacggcttca----atttttctggt-----ttactgaag
|  ||||||||| ||||| || | ||||| |||||| || |||||| | || ||||||||||| ||||| || |||||| | ||||||||| | || ||||| ||  |  ||   || |||  | | |||   | | |||   ||     |||   || ||  ||| |  | |  ||||            |||   |||  |||| | |||||     |||  |     |||  ||||   |   ||    ||| |||| ||     || ||| ||
TGCAGAAAGTGGTGAAGAGAGTTTAGAGAGAGAATCAGTTTATTCTTTGAAGTGTCATATATCTCATGATGTAAACCACCTTCATGAAGGACTTAAGCATgtaagttatgttaccattattaaactcataatttctattttatatcgagtagctcattgct--gattctgacaggatagttttttatgtgtacattattt-ttatactatgcttgcataaaacctcagaatttgtatgagaaggcccatgtaattattcttgtattctttcctgcag

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G017086_T03 (Zea mays), 5'ss of exon 10
TCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACATgtgagcaactttt--ataattccattatagactttgtttctgatttttcagcatgtttct-cggatacaaaaaaaataggacagcg--tttgctatattctgcttattataaattttttttttttgatgaacggcttcaatttttctggtttactgaag
|  ||||||||| || || |||   ||||||||||| |||||||| || || ||||||||||| || || ||||||||  | ||||| ||| | || ||||| || ||  ||       | ||||  ||   | | |  |   ||||  ||||||||| | | | || | | |   |   ||  |   ||||  | | |                                                            
TGCAGAAAGTGGTGAGGAGAGCATGGAGACAGAATCAGTATATTCCCTTAAGTGTCATATATCTCAAGATGTGAACCATCTTCATGAGGGAATTAAGCATgtaagtaatgttgtgccgctcccatgctatgttgtatcccaagttttatagcatgttttttcaggtatatatatc-tgaaacttcaaatttgtaaaagtga----------------------------------------------------------

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA08G20900.1 (Glycine max), 5'ss of exon 10
TCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACATgtgagcaacttttataattccatt---atagactttgtttctgatttttcagcatgtttctcggatacaaaaaaaataggacagcgtttgctatattctgcttattataaattttttttttttgatgaacggcttcaatttttctggtttactgaag
|||||| |||   |||||||||||||| ||||| ||||| ||||| || ||||| || |||||||| || |||||||| ||||| |||||  |||||||||| ||   ||     |  || |||   || |||      | || || |   |     ||   || |          ||  | ||    |||| | |||| |||                                                      
TCAAGAGAGTAATGAAGAAAGCTCAGAAACAGAGTCTGTTTATTCACTTAAATGCCACATATCACAGGAGGTGAACCATTTGCACGAAGGGATAAAACATgtaagtg-ctaaggcatctctatttccattgacaacacgtgtgtttgtgttggggcctttggggttgggggttgtttactaaaga---tgctgttttctccttg-----------------------------------------------------

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G01480.1 (Glycine max), 5'ss of exon 10
TCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACATgtgagcaacttttataattccattatagactttgtttctgatttttcagcatgtttctcggatacaaaaaaaatag--gacagcgtttgctatattctgcttattataaattttttttttttgatgaacggcttcaatttttctggtttactgaag
|||||| |||   ||||||||||||||  |||| ||||| ||||| || ||||| || ||||| || || |||||||| |||||||||||  |||||||||| ||   ||     |  ||  ||      |   ||    |  | |  |  ||| | | ||  ||        | |   ||   |  || | | |||| |||   |                                                  
TCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGGATAAAACATgtaagtg-ctaaggcatctctctt------tccattgacaacatgtgtgtttgtgtgttggggaccttgggggttgtttactaaggatgttgttttctccttgcaag-------------------------------------------------

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 5'ss of exon 10
TCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACATgtgagcaacttttataattccattatagactttgtttctgatttttcagcatgtttctcggatacaaaaaaaataggacagcgtttgc-tatattctgcttattataaattttttttttttgatgaacggcttcaatttttctggtttactgaag
  |||||||||| ||||| ||||||||||| ||||| || ||||| || ||||| || |||||||| || |||||||| |||||||||||| ||||||| || ||    ||| | |   | | ||   |    | |     | ||  |  || |   ||   ||        |||  ||    || || || || |      ||                                                   
CGAAGAAAGTGGTGAAGAGAGCTCAGAGACTGAATCAGTTTATTCACTTAAATGCCACATATCACACGAGGTGAACCATTTGCATGAAGGACTAAAACACgtaagtg-ttttcacagaactaataggaa----gctatcagtcttagaagatctcattcctttagttttcttataatactttattagcatacatgcaataccttt--------------------------------------------------

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|116485386|gb|EG527978.1|EG527978
EST:     AATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACAT                         GGACTGAAAGGGGAACTTGAAAAAACATCTCCTGCTCTTGGCCGTACTGCA
genomic: AATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGATTAAAACATgtgagcaact ... tttactgaagGGACTGAAAGGGGAACTTGAAAAAACATCTCCTGCTCTTGGCCGTACTGCA
EST: gi|125145843|gb|EL181040.1|EL181040
EST:     GAAGGATTAAAACAT                         GGACTGAAAGGGGAACTTG-AAAAACATCTCCTGCTCTTGGCCGTACTGCA
genomic: GAAGGATTAAAACATgtgagcaact ... tttactgaagGGACTGAAAGGGGAACTTGAAAAAACATCTCCTGCTCTTGGCCGTACTGCA