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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag

Basic information

species Arabidopsis thaliana
transcript AT2G36060.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G071010_T01 (Zea mays), 5'ss of exon 2
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctctgtttttttttcttcacttgctatgaatg-ataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
   ||| || ||||| |||||||| ||||||||||||||||||||||  |||||||| || ||||| || |||||||| || ||||| || |||||||| ||    | | |  | |  |  | | |  | || |  ||  |  ||   | |  |  |   |      ||  |      | |  || | || ||  | |  | |                        
AGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaaca-caatctcatcctctttatatttcccgtgcctttatttaattaaggttagacacgcacaactgccaactactagtactttgctgcaact--acc------------------------

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G027378_T01 (Zea mays), 5'ss of exon 2
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttata---tctctgtttttttttcttcact-tgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
   ||| || ||||| ||||| || ||||||||||||||||||||||  |||||||| || ||||| || |||||||| || ||||| || |||||||| ||    | |   ||||    | ||| ||||  || |||  | | | |    |  ||  |    |      ||  |      | |  || | || ||  |||  |                          
AGAGAAGGGCATTGGTGATGGGACAGTGAGCTATGGAATGGATGATGCTGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacacaatctcatcctctttatctttcctgtgcctttatttaattaaggttaggcacgcac----aactgccaactactagtactctgctgcaattata--------------------------

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G35790.1 (Glycine max), 5'ss of exon 2
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
    ||||| || ||||||||||| || |||||||||||||||||||| || |||||||| ||||||||||||||||| || || || || ||  | || |||  ||| | ||| ||  |   |      ||  | |  || | |    | ||||  | ||   |||   || ||  | |   |       |   ||| || |  |                    
AGAAAAAGGAATCGGAGATGGAACAGTTAGCTATGGAATGGATGATGGTGACGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGCCCCTATAATgtaaatatttatctattactgccttgattttttttttctatcaaa----tatgtgcatgctaaatgagctgtattttatttgaacca--gcgaattttcatgtatc--------------------

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G38450.1 (Glycine max), 5'ss of exon 2
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
    ||||| || |||||||| || || || ||||||||||||||||| ||||||||||| ||||||||||||||||| || || || |||||  | || |||  ||| | |||     |    ||| | ||  | |   | | |    | ||||  |  |   |||   || ||  | |  || |    ||   ||| || |  |                    
AGAAAAAGGAATAGGAGATGGCACAGTTAGTTATGGAATGGATGATGGTGATGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGTCCCTATAATgtaaatatttatctaacactgc--cttgatttttttttcttcaaa----tatgtgcatgttaaatgagctgtattttatttgtacta--gtgaattttcatgtagcaa------------------

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G21780.1 (Glycine max), 5'ss of exon 1
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
    ||||| ||| ||||||| ||  | ||||||| |||||||||||| ||||||||||| ||||||||| |||||||||| || || || || || || |||  ||| ||||||||   | |  |  | |     | |  |||  |  |       |  || |    ||    |   | | |      |      || |                          
TGAAAAAGGAATTAGAGATGGCACAATTAGCTATGTAATGGATGATGGTGATGACATTTACATGCGCTCTAGGACTGGCACCATTATTGGCCCCCAAAATgtaaatatttctctgttcactctg-tagattcatccttatcgatgtgtgtccaatgatagttatcagttgcatgtaagaggctgcccccaaaaatgttaaa-------------------------

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0080g01080.t01 (Vitis vinifera), 5'ss of exon 2
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
   ||| |||||||||||||| |||||||| |||||||||||||||||||||||||| || ||||| |||||||| || || || || ||||| ||||| |||   |    |      |||||      |||||| | |    |   | |   |   |   |    || ||        |  |   |||  |||  || | ||                       
GGAGAAGGGTATTGGAGATGGTACTGTGAGTTATGGAATGGATGATGGAGATGACATATACATGCGGTCTTGGACAGGAACCATAATTGGTCCACACAATgtaagcagccttaaaacattttt------cttgctgtaacatttcttattcattcattatgttccaaaaggatcaatcctcttccagtggggtgccttaaactttt--------------------

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGT-Agttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
   |||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  |||||||||||||| |||||||| || || ||   | |||| ||||   || | |   |    | | || ||    |||||  |||    |    ||   ||   | |   |      |  ||||   ||  | ||  | ||                        
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCAAGCCACgtcagttccgtc-cagagctaaaatttacatttcgcgtgaat--tagcgactcccatcccttttaggcacaattagtagaaaatatcaagac-taataagttca-----------------------

upper sequence: AT2G36060.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S60_129V6.1 (Physcomitrella patens), 5'ss of exon 3
---GAAAGGTATTGGAGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctctgtttttttttcttcacttgctatgaatgataggactttgtgtcttcttcttgaatggtgttggaatgatattgtgatgtgatttgatctgactggtaattttgtttgtgcag
   ||||||||| || ||||| || ||||||||||| |||||||| || || ||  | | ||||||||||||||| ||||||||||| || ||   | | ||   |   |  | |   |        || |||   |  |   || || | |||||          ||    |  | ||||    |    | ||||    | | ||                    
TGAGAAAGGTATCGGCGATGGCACAGTGAGCTATGGCATGGATGACGGCGACGATGTATTTATGCGCTCTTGGACCGGCACTATCATTGGACCAAGCCATgtgagttccttgcagagctaa------catttgtggtagaccttacgaatgtgtgttaaacggcgaaaactaggagcaatgggcataaactatgatgcattatcac--------------------

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|124956187|gb|EL031136.1|EL031136
EST:     GTCCTCACAACGTA                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: GTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|125187500|gb|EL202454.1|EL202454
EST:     GGTCCTCACAACGTA                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: GGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|86078812|gb|DR374569.1|DR374569
EST:     MCATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAAC---                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|116466784|gb|EG509376.1|EG509376
EST:     ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAAC--A                         -CTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|116467250|gb|EG509842.1|EG509842
EST:     ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTA                         ACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
genomic: ACATTTATATGCGCTCTTGGACTGGCACTATCATCGGTCCTCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGATTTATCAGTTGAAGCTCTTCTGTGACAAAGAT
EST: gi|124955522|gb|EL030529.1|EL030529
EST:     CACTATCATCGGTCCTTCACAACGTA                         ACTGTACATGAGGGTCGGATTTTATCAGTTGAAGCTCTTCTGTGACAAAGA
genomic: CACTATCATCGGTCC-TCACAACGTAgttatatctc ... gtttgtgcagACTGTACATGAGGGTCGGA-TTTATCAGTTGAAGCTCTTCTGTGACAAAGA