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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttctcttttgctcttacttaagacgttttctttgaaacctgtagctattcttctaatttgtttacttatcatgttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G34020.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 1
GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttc-----tcttttgctcttacttaagacgttttctttgaaacctgtagctattcttctaatttg--tttacttatcatgttgcag--------------------------------------------------------
|||||  |||||||||  || |||||||||||||||||||| ||||||||||||||||| || || ||||  |||||||||||| |||| | ||| ||||||||     |      ||||     || |||  |  || |  ||     ||  |   ||  | |||||  |     | |  ||  ||  |||||                                                        
GCAGCACTAGATGCTGGCGCATGGATGTTCAATGTCGTCACATCTGTTGGTATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcatgcccaatcttcattcctaactgcatgcgatgcctgattcacgcgcgccttcttttctatctaaaagtaaactactattgtgcagaaaaattcagtctgcttgtcttgtgctaatttgttcactaccttttgctcctacag

upper sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttct-----cttttgctcttac---------ttaagacgttttctttgaaacctgtagctattcttctaatttg--tttacttatcatgttgcag--------------------------------------------------------------------------------------
|||||  |||| ||||  || |||||||||||||||||||| || |||||||||||||| || || ||||| |||||||||||  |||||| ||| || |||||     |       |||| | || ||            |  ||| |  ||     ||| |   || |  ||||   |     | |  ||  || |||| |                                                                                      
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag

upper sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G27820.1 (Glycine max), 5'ss of exon 1
GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttctcttttgctcttacttaagacgttttctttgaaacctgtagctattcttctaatttgtttac-----ttatcatgttgcag------------------------------------------------------------------
|| ||  | ||||| ||||| |||||||||||||| || || |||||||| ||||||||||| || |||||||| ||||| |||||||| |  || |||||||||    |   |     ||||| | |      | |  |||  |     ||   || | | |  | || ||      | |||||| |                                                                      
GCTGCTATGGATGCAGCTGCATGGATGTTCAATGTTGTTACATCTGTTGGAATCATCATTGTAAACAAAGCTTTGATGGCCACTTATGGCTTCAGTTTTGgtaaattccttattcaatttcttaatgacatttctgttattggtatactgagtc-ttttcccaggtagtatatgatcatgatcatgctctgatgttaattttttttttatcttttaatgtgatttgtctattactgcttgcggccacaacattaacag

upper sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G08700.1 (Glycine max), 5'ss of exon 2
GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttctcttttgctcttacttaagacgttttctttg------aaacctgta-gctattcttctaatttgtttacttatcatgttgcag--------------------------
|| ||||| ||||| ||||| |||||||||||||| || || |||||||| ||||||||||| || |||||||| |||||  ||||||| |  || |||||||||  || |   ||   | |       |||||||   ||       ||  |  ||  | ||  | ||    |||| | || | || ||  |                           
GCTGCCGTGGATGCAGCTGCATGGATGTTCAATGTTGTTACATCTGTTGGAATCATCATTGTAAACAAAGCTTTGATGGCCTCTTATGGCTTCAGTTTTGgtaaa--ttccctattcaatttcttaatggacgtttctgttattggcaaattccctatacgatcatgctctgatgttaattttttatcttttaatgtgatttgtctattactgcttgcag

upper sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G36620.1 (Glycine max), 5'ss of exon 1
GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttctcttttgctcttacttaagacgttttctttgaaacctgtagctattcttctaatttgtttacttatcatgttgcag----------------
||| | || || || ||||| ||| |||||||||| ||||||||||||||  | |||||||| || |||||||| ||||| |||||||| |  || |||||||||  |  || |     | ||   | | |  | ||||| |    |  |   | || ||  ||||     | ||   || | |  |                
GCAACAGTGGACGCAGCTGCATGGGTGTTCAATGTTGTCACTTCTGTTGGAGTTATCATTGTAAACAAAGCTTTGATGGCCACTTATGGCTTCAGTTTTGgtaaat-taactttccaatttttcactgatatctgttcttgggttacattg--tgtttttggaattatggaatttgatatatagagggaggaagagagataaa

upper sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 1
GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttctc---------ttttgctcttacttaagacgttttctttgaaacctgtagctattcttctaatttgttt----acttatcatgttgcag
|||||  ||||||| || || |||||||||||||| |||||||||||||| || ||| |||| || ||||| |||||||| || ||||| |  || ||||||||   |||            ||  | | || |||       |||||||      ||||  | || | |     ||| |    | || |||  |   | 
GCAGCACTAGATGCAGCCGCATGGATGTTCAATGTTGTCACTTCTGTTGGGATTATCCTTGTCAACAAAGCATTAATGGCTACATATGGATTCAGTTTTGgtaattcttttctaaagtaaatttgcgttttttctttgattaatttcttttgcctgtgtatattttttacatgcatgtgtggataattctcacttcttaa

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|86044312|gb|DR340067.1|DR340067
EST:     TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTG                         CTACAACGTTAACCGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG
genomic: TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagattt ... catgttgcagCTACAACGTTAACTGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG
EST: gi|86044311|gb|DR340066.1|DR340066
EST:     TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTG                         CTACAACGTTAACCGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG
genomic: TATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagattt ... catgttgcagCTACAACGTTAACTGGTTTACATTTCGCTACAACGACTCTGATGACGCTTG