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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgtttgtttatctaagcctcattgatttttgactcttaaaagaaccaggtgttcattgcttggtttgatatagaaattaagatgtcgactgatacaagcttgtgttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G66470.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G66470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g49220.2 (Oryza sativa), 5'ss of exon 2
TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgt----ttgttta---tctaagcctcattgatttttgactcttaaaagaaccaggtgttcattgcttggtttgatatagaaattaagatgtcgactgatacaagcttgtgttgcag
    || |||||  ||||||||||| | || ||||| ||||| ||||| ||||| ||  ||||||| ||||||||||| ||||||   || ||||| |||||       ||||   |||||  ||    |||| | |||| | ||| |    |  |||| ||| ||   |   | ||   | |||  || | |                       
AATTAACCAAATTGTTGGTCAGAAACTTTCAATTGTGACAGACAAACCGCAAACCACACGGCATCGCATTCTTGGTATATGTTCTGAACCAGAATACCAGgtatcaccttttagtttctaaagctttaggattatagactatgaaaggggg-aaatgttaatttctcactgcta-atctgagttatcatttag-----------------------

upper sequence: AT5G66470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g49220.1 (Oryza sativa), 5'ss of exon 2
TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgtttg----ttta---tctaagcctcattgatttttgactcttaaaagaaccaggtgttcattgcttggtttgatatagaaattaagatgtcgactgatacaagcttgtgttgcag
    || |||||  ||||||||||| | || ||||| ||||| ||||| ||||| ||  ||||||| ||||||||||| ||||||   || ||||| ||||| |     ||||   |||||  ||    |||| | |||| | ||| |    |  |||| ||| ||   |   | ||   | |||  || | |  ||                   
AATTAACCAAATTGTTGGTCAGAAACTTTCAATTGTGACAGACAAACCGCAAACCACACGGCATCGCATTCTTGGTATATGTTCTGAACCAGAATACCAGgtatcaccttttagtttctaaagctttaggattatagactatgaaaggggg-aaatgttaatttctcactgcta-atctgagttatcatttagtttgcag----------------

upper sequence: AT5G66470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G158024_T02 (Zea mays), 5'ss of exon 2
TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgttt----gtttatctaagcctcat-tgatttttgactcttaaaagaaccaggtgttcattgcttggtttg-atatag-aaattaagatgtcgactgatacaagcttgtgttgcag------------
|   || |||||| ||||||||||| | || ||||| ||||||||||| |||||||| || ||||| ||||||||||| ||||||   || || || ||||| |     ||||  | ||    ||   | ||  ||  ||   |||     |||   |||  |    || | ||  ||   || | | ||      | | | |   || |||   |            
TATTAACCAAATGGTTGGTCAGAAACTTTCAATTGTAACAGATAAACCGCAAACGACAAGACATCGCATTCTTGGTATATGTTCTGAACCAGAGTACCAGgtatcagaatttaattcagttcaatacaaattaagatcctcggaagttttcggt-cccataaccccattagcatcaagtggatcatgttgcttttcgctgctaatctgagttatcgtttagtttgcag

upper sequence: AT5G66470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G158024_T01 (Zea mays), 5'ss of exon 2
TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgttt----gtttatctaagcctcat-tgatttttgactcttaaaagaaccaggtgttcattgcttggtttg-atatag-aaattaagatgtcgactgatacaagcttgtgttgcag-----
|   || |||||| ||||||||||| | || ||||| ||||||||||| |||||||| || ||||| ||||||||||| ||||||   || || || ||||| |     ||||  | ||    ||   | ||  ||  ||   |||     |||   |||  |    || | ||  ||   || | | ||      | | | |   || |||   |     
TATTAACCAAATGGTTGGTCAGAAACTTTCAATTGTAACAGATAAACCGCAAACGACAAGACATCGCATTCTTGGTATATGTTCTGAACCAGAGTACCAGgtatcagaatttaattcagttcaatacaaattaagatcctcggaagttttcggt-cccataaccccattagcatcaagtggatcatgttgcttttcgctgctaatctgagttatcgtttag

upper sequence: AT5G66470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G24870.1 (Glycine max), 5'ss of exon 2
TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgtttgtttatctaagcctcattgatttttgactcttaaaagaaccaggtgttcattgcttggtttgatatagaaattaagatgtcgactgatacaagcttgtgttgcag-
  |||| |||||| | || || ||  | || || ||||||||||||||||||||||||||||||||||||||  |||| |||||| || | || ||||||||||         || |  |||  ||  |    ||| |          |    | |    |  |  || |   ||||  ||| |    ||     |  |||     |   
GGCGAACCAAATGCTAGGGCAAAAGTTGTCAATAGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTGTGTATATGTTCTGGCACGGATTATCAGgtttt--------agtcctatttcttcctagtcctttagtttgttt--ttcctactaaacgcctgaatgtgtcaatttggatttgcgttggagtcatgttgaaacaccaa

upper sequence: AT5G66470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G06100.1 (Glycine max), 5'ss of exon 2
TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgtttgtttatctaagcctcattgatttttgactcttaaaagaaccaggtgttcattgcttggtttgatatagaaattaagatgtcgactgatacaagcttgtgttgcag
  | || |||||| |||| || ||  | || || |||||||||||||||||||| || ||||||||||||||  |||| |||||| ||   || ||||||||||   |  |||    |   |  |  ||   | |     |       |  | |  || ||  |   | ||         | || |  | || |||  |  |||||   
GGCAAACCAAATGCTTGGCCAAAAGTTGTCAATAGTTACAGATAAACCTCAAACAACAAGGCATCGGATTCTGTGTATATGTTCTGGCGAGGATTATCAGgtttcaat-cctatttttagctagtcctttggttt-----gtttttcctactaaacgcctgaatgtgtttatttggattcacgttggattattcaaaatcatgttg---

upper sequence: AT5G66470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv04s0023g02120.t01 (Vitis vinifera), 5'ss of exon 2
TTCGAATCAAATGATTGGTCAGAAAATATCGATTGTTACAGATAAACCTCAAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgtttgtttatctaagcctcattgatttttgactcttaaaagaaccaggtgttcattgcttggtttgatatagaaattaagatgtcgactgatacaagcttgtgttgcag
| | || |||||||| || || ||  | || |||||||| |||||||||||||| || |||||||| || |||||||| |||||| | || || |||||||||||   || |       | |   || | |  ||| |       || ||    ||  |   |||    | ||  || |    |  |||| ||        || || | 
TGCAAACCAAATGATAGGCCAAAAGTTGTCAATTGTTACTGATAAACCTCAAACCACAAGGCATCGAATCCTTGGTATATGTTCTGGTCCAGAGTATCAGgtttgaacattttgtatataatagattatcatgcttgatg---ttagttgcctctt--taaattttcatttgactttca---cttaactgttatgcaacaatgctgaa-

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|124890339|gb|EH969241.1|EH969241
EST:     AAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAG                         ATGATACTTTATGATACGCCTGGTGTAATTGAGAAGAAG
genomic: AAACGACGAGGCATCGGATTCTTGGTATTTGTTCTAGCCCTGAATATCAGgtttgtttat ... tgtgttgcagATGATACTTTATGATACGCCTGGTGTAATTGAGAAGAAG