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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCGGAACTCAGAATCACAAAGTTGATTCTGTCATGGCTAAGCCGCTGAAGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAGgtatgagatagataatgtactgtttaagttttttctttttcttcaaggtatatctcagaaatagagatggcagctatttcttgttccctatgcagcttcc...

Basic information

species Arabidopsis thaliana
transcript AT1G73430.2
intron # 24
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73430.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA17G04990.1 (Glycine max), 5'ss of exon 23
CTCCGGAACTCAGAATCACAAAGTTGATTCTGTCATGGCTAAGCCGCTGAAGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAGgtatgagataga-taatgtactgttta-agttttttctttttcttcaaggtatatctcagaaatagagatggcagctatttcttgttccctatgcagcttcc
 || ||   ||||||||| ||  | || || || ||||| || || |||||||| || ||||| || || ||||||||||||| ||||||||||||||||||| |  ||  | || |      |||| | || |||   ||  ||     |  | ||    ||||   |    |  || |    |    || | |   |   
ATCAGGTGGTCAGAATCAAAAGCTAGAGTCAGTTATGGCCAAACCTCTGAAGGATCAGGCTTTTGCTACTCCAGATAAGGTGGCTGAACTTGTTCAAAAGgtaggtcatttactagttagaaatttagaattatttacattattttttcattgaactacagaatatctagtctaattaataagagaattct-tacccttgg-
















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|116477892|gb|EG520484.1|EG520484
EST:     AGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAG                         GTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA
genomic: AGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAGgtatgagata ... tttcaaccagGTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA
EST: gi|116477889|gb|EG520481.1|EG520481
EST:     AGGAACAAGCTTTCGCGACCCCAGATAAGGTGGTTGAACTTGTTCAAAAG                         GTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA
genomic: AGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAGgtatgagata ... tttcaaccagGTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA
EST: gi|125233333|gb|EL247418.1|EL247418
EST:     ATAAGGTGGTTGAACTTGTTCAAAAG                         GTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA
genomic: ATAAGGTGGTTGAACTTGTTCAAAAGgtatgagata ... tttcaaccagGTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA
EST: gi|116477896|gb|EG520488.1|EG520488
EST:     AGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAG                         GTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA
genomic: AGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAGgtatgagata ... tttcaaccagGTATACGCTGCGATACAACAAGAGTTGCTTCCGATTTTAGCAAAAATGAAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCCGGAACTCAGAATCACAAAGTTGATTCTGTCATGGCTAAGCCGCTGAAGGAACAAGCTTTCGCGACACCAGATAAGGTGGTTGAACTTGTTCAAAAGgtatgagatagataatgtactgtttaagttttttctttttcttcaaggtatatctcagaaatagagatggcagctatttcttgttccctatgcagcttcc

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT