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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtataccaagaagcctttgattgagtattatgcacagtttctcttggttgtgtaagattttcatctgtcttgattgtttgaatag

Basic information

species Arabidopsis thaliana
transcript AT4G16760.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os06g01390.1 (Oryza sativa), 5'ss of exon 4
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtataccaagaagcctt------tgattgagtattatgc-acagtttctcttggttgtgtaagattttcatctgtcttgattgtttgaatag---------------------
||||||||| || |||||||| || ||||| ||||| ||||||||||| || ||||||||||||||||| || ||||  || || | |||  |   ||| ||||   | | |   |  |||      | ||  | ||  |||| ||| ||  ||||   | || ||  | ||||  | ||||| |||  ||  |                       
TGGTCATGGTTCCAATGTTCAGGGCCTTGAAACAACCGCCACATTTGACCCAAAGACTGATGAGTTTGTTATACACAGCCCGACACTGACCTCTAGCAAGgtaatactcctatctactcttcctctcttatctattaagatgctacatttcttctttaatttggaatttcttcaa-tatcttg-ttgcatggttcatgattttatccccatgtgcag

upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM5G864319_T01 (Zea mays), 5'ss of exon 4
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaa------gtataccaagaagcctttgattgagt-attatgcacagtttctcttggttgtgtaagattttcatctgtcttgattgtttgaatag-------------------------------------------------
 |||||||||||||| ||||| || ||||| |||||||||||||||||||| ||||||||||||||||| || |||| |||||||| |||  |   ||||||||      ||  | |||  | |      |||| | ||| |  |    |||| ||  ||   |    |||   | |   ||     |||| ||                                                   
CGGTCATGGCTCAAACGTTCAGGGCCTTGAAACAACTGCCACATTTGATCCAAAGACTGATGAGTTTGTCATCCACAGTCCAACTCTGACCTCCAGCAAAgtaaagtcctgtgaatcaactacctccattttgatttattttaaaaccattcttttcctttccttttttttgtgt-tactttagccatttgtatcttgttcaaaatcttgtccacaatttgttacatctatcttcatgttggcag

upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G052389_T01 (Zea mays), 5'ss of exon 4
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaag------tataccaagaagcctttgattgagt-attatgcacagtttctcttgg------ttgtgtaagattttcatc--tgtcttgattgtttgaatag----------------------------------------------------
||||||||||||||| ||||| || ||||| |||||||| ||||| ||||| ||||||||||||||||| || |||| ||||||||  ||  |   ||||||||       |  | |||    |   | ||||| |  |||   ||| || |||||        || |  || |||||| |    |  ||     |||| |  |                                                    
TGGTCATGGCTCAAACGTTCAGGGCCTTGAAACAACTGCTACATTCGATCCGAAGACTGATGAGTTTGTCATCCACAGTCCAACTCTCACGTCCAGCAAAgtaaagccctatggatcaactgccaccttattgatttgttaaaaacatttgctcttttccctcttttttcaaaattttctttagcggtttagccatttgtaatgtaaatagttaaagacgctgccccaaaattcattacatgtctcttgttggcag

upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G04940.1 (Glycine max), 5'ss of exon 4
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtataccaagaagcctttgattgagtattatgcacagtttctcttggttgtgtaagattttcatctgt-----cttgattgtttgaatag-----------
||| ||||| || ||||||||||| ||||| |||||||| || ||||||||||  || || |||||||||||||| |  || ||   |||| ||  |||||| |||| |   |||      | || |     | |  || | | || |  | |||||    ||||||| | |       |    | |  ||| |           
TGGCCATGGATCTAATGTTCAAGGGCTTGAAACAACTGCAACCTTTGATCCCAGAACAGACGAGTTTGTAATTCATAGCCCCACATTGACTTCAAGCAAAgtgagtacaatgagagatggcttatgggagccttt--actggtcctttaagatgtgtg---ttttcatgtatgagattctagaagatgaaattgtgttcattcat

upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA01G41600.1 (Glycine max), 5'ss of exon 4
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtataccaagaagcctttgat-tgagtatt-----atgcacagtttctcttggttgtgtaagatttt-catct------gt--cttgattgtttgaatag----------------------------------------------------------------------------------
||||||||| || ||||||||||| || || |||||||| |||||||||||||| || || || ||||| || || |  || ||   |||| |   |||||| |||  |    |      ||  | ||||  ||      |       |  | ||    || ||||||| | |||||      ||  | || |  ||| |  ||                                                                                  
TGGTCATGGGTCCAATGTTCAAGGGCTAGAAACAACTGCAACATTTGATCCCAAAACAGACGAATTTGTTATCCATAACCCCACATTGACTTCCAGCAAAgtgagttaaatgggtgattattcctgtgagcctttattggtcttttactatttttaaccgtttaagattctacatcttacaatgttacctggtgctttaacaagtacattaagagaaaacactgtttttactttttatgaagtgtattttggatttatatcatgcttctgacattgatttaaacag

upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G15320.1 (Glycine max), 5'ss of exon 4
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtataccaagaagcctttgattgagtattatgcacagtttctcttggttgtgtaagattttcatctg----tcttgattgtttgaatag--------------------------------------------------------------------------------------------------
    || || || ||||||||||| || || | |||||| || ||||||||||| || || |||||||||||||| |  || ||   |||| |   |||||| |||| |   |||      | || ||    | |  || | | || |  | ||||     |  | || ||    ||| || | |   | |                                                                                                    
----CACGGATCTAATGTTCAAGGGCTAGAAAAAACTGCAACCTTTGATCCCAAAACAGACGAGTTTGTAATTCATAGCCCCACATTGACTTCCAGCAAAGTGAgtacaatgagagaaggcttatggaagccttt--actggtcctttaagatgtgcgttgtcatgatatgatattctagaatatgaaattgtattcatacattcatatgaacaatcagggaaaaacagtttgtaccttttatttagttatttttgtatttactgtgttttaaagggtatttggctaacag

upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA14G14990.1 (Glycine max), 5'ss of exon 3
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtataccaagaagcctttgat-tgagtatt-----atgcacagtttctcttggttgtgtaagatttt-catctgtcttgattgtttgaatag-----
 |||||||| || ||||||||||| || || |||||||| || ||||||||||| || || || ||||| || || |  || ||   |||| |   |||||| |||  |    |    |  |  | ||||  ||      |      ||  | ||    || ||||||| | |||||  |    ||     | |       
GGGTCATGGGTCCAATGTTCAAGGGCTAGAAACAACTGCAACGTTTGATCCCAAAACAGACGAATTTGTTATCCATAGCCCCACATTGACTTCCAGCAAAgtgagtgaaatgggttatcactcctatgagcctttactggtcttttattatttttaaccgtttaagattctacatcttacaatgttaccc-agtgctttaa

upper sequence: AT4G16760.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G03800.1 (Glycine max), 5'ss of exon 4
TGGTCATGGCTCAAATGTTCAAGGACTTGAGACAACTGCCACATTTGATCCCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtataccaagaagcctttgat-tgagtatt-----atgcacagtttctcttggttgtgtaagatttt-catctgtcttgattgtttgaatag-----
 |||||||| || ||||||||||| || || |||||||| || ||||||||||| || || || ||||| || || |  || ||   |||| |   |||||| |||  |    |    |  |  | ||||  ||      |       |  | ||    || ||||||| | |||||  |    ||     | |       
GGGTCATGGGTCCAATGTTCAAGGGCTAGAAACAACTGCAACGTTTGATCCCAAAACAGACGAATTTGTTATCCATAGCCCCACATTGACTTCCAGCAAAgtgagtgaaatgggttatcactcctgtgagcctttactggtcttttactatttttaaccgtttaagattctacatcttacaatgttacc-aagtgctttaa

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|116424738|gb|EG467330.1|EG467330
EST:     CCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAA                         TGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
genomic: CCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtatac ... gtttgaatagTGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
EST: gi|164078180|gb|EL991557.1|EL991557
EST:     GTTTGTAATTCACACTCCAACTCAGACTGCATCCAAA                         TGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACCCATGCTGTTGTTTACGCT
genomic: GTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtatac ... gtttgaatagTGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
EST: gi|124897175|gb|EH973389.1|EH973389
EST:     CCAACTCAGACTGCATCCAAA                         TGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
genomic: CCAACTCAGACTGCATCCAAAgtaagtatac ... gtttgaatagTGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
EST: gi|125276427|gb|EL290512.1|EL290512
EST:     TTTGTAATTCACACTCCAACTCAGACTGCATCCAAA                         TGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
genomic: TTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtatac ... gtttgaatagTGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
EST: gi|116424736|gb|EG467328.1|EG467328
EST:     CCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAA                         TGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT
genomic: CCAAGACTGATGAGTTTGTAATTCACACTCCAACTCAGACTGCATCCAAAgtaagtatac ... gtttgaatagTGGTGGCCTGGTGGTTTGGGAAAAGTTTCTACTCATGCTGTTGTTTACGCT