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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCCTATTGTTGAGGAACCTGATTGTGCATACATGTCAAGTGCTgtaagtttttaactttcctctattaaattcaattgctaaaacagatcaaatttgtgattcatcctcataatgaattatatggttcacgcctttttacatgtttag

Basic information

species Arabidopsis thaliana
transcript AT5G51460.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G51460.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
GAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCCTATTGTTGAGGAACCTGATTGTGCATACATGTCAAGTGCTgtaagtttttaactttcctctattaaattcaattg-ctaaaacagatcaaatttgtgattcat-cctcataatgaattatatggttcacgcctttttacatgtttag
   | ||||     | |||||  | |||||||||||||| |||||||| |||||||| || ||||| ||  | |||||   |||||  |||||   ||  ||| |||||   ||     || ||||| | |   | | |   ||  |  | || |   |  |  | |  || | |   ||  |     |                  
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttcc-ctaagtccttttaaaattagcagtccagtgcaatttcagttcgctttctaaacattgtattcacagatgcgtgctgcag----------------

upper sequence: AT5G51460.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G178546_T01 (Zea mays), 5'ss of exon 3
GAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCCTATTGTTGAGGAACCTGATTGTGCATACATGTCAAGTGCTgtaagtttttaactttcctctattaaattcaattgctaaaacagatcaaatttgtgattcatcctcataatgaattatatggttcacgcctttttacatgtttag
   | ||||     | |||||  | |||||||||||||| |||||||| |||||||| || ||||| ||  | |||||   |||||  |||||   ||  ||| |||||   ||     || ||||| | |   |      |||  ||| ||     |||    ||  ||   ||| |||   ||||                  
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttcc-ctaagtccttttaaaattagcagtc----cagtgcaatttca--gttcgctttctaaac--attgtat---tcacag----------------

upper sequence: AT5G51460.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA04G13880.1 (Glycine max), 5'ss of exon 3
GAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCCTATTGTTGAGGAACCTGATTGTGCATACATGTCAAGTGCTgtaagtttttaactttcctctattaa-attcaattgctaaaacagatcaaatttgtgattcatcctcataatgaatt-atatggttcacgcctttttacatgtttag
 |  | ||||||||| || ||||||||||||||||| |||||||| ||||| ||||| || ||||| ||  | ||||| | ||| | |||||||     |||| ||  |   || |  |   |||   | ||  |  | |   ||||    |||     ||||  |  |  |    | || ||   |      || | ||       
CAACTGTGCAAAAGGGAAGAGAATAGCATTGTTTCTGGATTATGATGGGACTCTTTCACCCATTGTGGATAATCCTGACTCTGCTTTCATGTCAGACAATgtatgtaatgctctcttttgatttagtgtccagattttcagttagat--gtttttcttctcatgttgttgctttgctgatctgaccctgaaacttctgcag------

upper sequence: AT5G51460.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA06G47630.2 (Glycine max), 5'ss of exon 2
GAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCCTATTGTTGAGGAACCTGATTGTGCATACATGTCAAGTGCTgtaagtttttaactttcctctattaa-attcaattgctaaaacagatcaaatttgtgattcatcctcataatgaattatatggttcacgcctttttacatgtttag
 |  | ||||||||| || ||||||||||||||||| |||||||| || || ||||| || ||||| ||  | ||||| ||||| | |||||||     |||| ||  |    | |  |   |||   | ||  |  | ||  || |    ||  |   |  |  | |   ||| | || || | |      || | ||       
CAACTGTGCAAAAGGAAAGAGAATAGCATTGTTTCTGGATTATGATGGAACTCTTTCACCCATTGTGGACAATCCTGACTGTGCTTTCATGTCAGACAATgtatgtaatgctgtcttttgatttagtgtccagattttcaattaggtgtttttcttctcttgttattaccttga-tgatctgatcctgaaacttctgcag------

upper sequence: AT5G51460.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv16s0022g00660.t01 (Vitis vinifera), 5'ss of exon 2
GAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCCTATTGTTGAGGAACCTGATTGTGCATACATGTCAAGTGCTgtaagtttttaactttcctctattaaattcaattgctaaaacagatcaaatttgtgattcatcctcataatgaattatatggttcacgcctttttacatgtttag------------------
||  | ||| || || |||||||||||||||||||| || ||||| ||||| || || |||||||| ||  | |||||  | || | ||||||   |  ||| ||  |     || | |   || |  || ||   | | |  | | | |||  |  || ||  || |    ||  || |    |   | ||||| ||    ||                   
GAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCACCTATTGTAGACAACCCTGACCGAGCCTTCATGTCTGATTGTgtgagaatcctgtttgcttgagttca--tctataattgagaatgttaagattctt--tttattttctttggaaaagat-tttcactttcttttttgcactgatattcttgtgcatgttggcag

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|125299235|gb|EL313320.1|EL313320
EST:     TGTCAAGTGCT                         ATGCGTAGTGCAGTGCAAAATGTTGCCAAGTATTTCCCTACCGCGATCATT
genomic: TGTCAAGTGCTgtaagttttt ... acatgtttagATGCGTAGTGCAGTGCAAAATGTTGCCAAGTATTTCCCTACCGCGATCATT