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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaatacttgtgaccacgaatgaattgttctgaattgcattaagaatgaattgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat...

Basic information

species Arabidopsis thaliana
transcript AT5G42020.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os02g02410.1 (Oryza sativa), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaa-tacttgtgaccacgaatgaattgttctgaattgcattaagaatgaattgtt-ctgaattgcattgt-gttcaataacaaatgattgctgtgccaat
|| ||||||||||||||||| || || ||||||||| ||||||||||||| ||||| |||||||||||  |  |||| ||||||||||||||  | |||||||  | | ||| |     |   |   |  |    |  ||| |    |    ||      || |  | | ||| |||  ||    |||||||    ||| |  
GTCTTTGACCTTGGTGGTGGGACATTCGATGTCAGTATCTTGACCATTGACAACGGTGTGTTTGAGGTGTTGGCCACCAATGGTGACACTCATCTTGGAGgtatgactgcttttatttgcccttaggtactaaatatctgcttctgtacaacatcacagttgtagagtactgtagtttgat--tcaatgattttcatgcaac-

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaatacttgtgaccacgaatgaattgttctgaattgcattaagaatga-attgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat
|| ||||||||||||||||||||||||||||||||| ||||||||||||||||||| ||||||||||| ||  |||| ||||||||||| ||  | |||||||| | | | |  | |    || | ||        |||  ||    ||   |    ||   ||       |||      |  | |  ||| | ||    |
GTCTTTGACCTTGGTGGTGGTACTTTTGATGTCAGTATCTTGACCATTGATAACGGTGTGTTTGAGGTGCTGGCCACCAATGGTGACACCCATCTTGGAGgtaagaga-tagctatcctatattattttcagatgcttgtgtttgatatattaaaactcatgatgatgccatgtattcataggatttgttgatctgaatct

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G114793_T01 (Zea mays), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaata--cttgtgaccacgaatgaattgttctgaattgcattaag--aatgaattg-ttctga--attgcattgtg--ttcaataacaaatgattgctgtgccaat
|| ||||||||||||||||||||||||||||||||| ||||||||||||| ||||| ||||||||||| ||  |||| ||||||||||||||  | |||||||| | |   ||   |  |  | |   | | | |    |||| || |  |||||| |  ||||||  |||| | | |    | | || || ||| ||           
GTCTTTGACCTTGGTGGTGGTACTTTTGATGTCAGTATCTTGACCATTGACAACGGTGTGTTTGAGGTGCTGGCCACCAATGGTGACACTCATCTTGGAGgtaagagaattttcccattaaaactatctagctatcccatgcactacgacaatgaaatacttctgattattgtactattatcttattaccagatgcttat---------

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G02940.1 (Glycine max), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaatacttgtgaccacgaatgaattgttctgaattgcattaaga-atgaattgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat-------------
|| ||||| ||||||||||| || |||||||||||| ||||||| ||||||||||| || ||||| |||||  | |||||||| || |||||  | |||||| |  ||||| |   |||  |   |       ||||   || ||   ||  ||| ||   |      ||   |||     | ||||  |||| |  |  |             
GTCTTTGATCTTGGTGGTGGGACCTTTGATGTCAGTATCTTGACAATTGATAACGGTGTTTTTGAAGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgag-tacttttatacacatacacacaaga--gaatgaaatgaaattatatattctttccataaaattttctttctgatgctaatgtctgctatttctgtttccccttactag

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaatactt-----gtgaccacgaatgaattgttctgaat-tgcattaagaatgaattgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat-------------
|| ||||||||||| ||||| || |||||||||||| ||||||| |||||||| || || |||||||||||  | |||||||| || |||||  | |||||| | |   ||      |||    |||| |      || | | || |  || |||    |  | |  |    ||| | |||       |||| ||||| |  |                
GTTTTTGACCTTGGGGGTGGAACATTTGATGTCAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttaatgagtctgaataagaaaaacttattatgtagaaaaaatattattctttccacaaaattttcttctgatgttaatgcttgctatttctccttcaccttaccag

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G36620.1 (Glycine max), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaa-------atacttgtgaccacgaatgaat---tgtt-ctgaattgcattaagaatgaattgttctgaattgcattgtg--ttcaataacaaatgattgctgtgccaat------------
|| ||||| ||||||||||| || |||||||||||| ||||||| |||||||| || || ||||| |||||  |||||||||| || |||||  | |||||| |        ||||   |   ||| |   |||   ||||  |  || | | | | | |  ||  |  |   ||  ||| |   ||   |  | ||||  |||| | |   |            
GTCTTTGATCTTGGTGGTGGGACCTTTGATGTCAGTATCTTGACAATTGATAATGGTGTTTTTGAAGTTCTTGCCACAAATGGAGATACTCATCTTGGAGgtgagtacttttatacacatacacacaagctaatgtctgttattctatggaaatgaaattatataatctttccttaaatttttccttttgttgctaatgtctgctattctgtttcccctttccag

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaa--------tacttgtgaccacgaatgaattgttctgaattgcattaagaatgaattgttctg--aattgcattgtgttcaataacaaatgattgctgtgccaat-------------
|| ||||||||||| ||||| || |||||||| ||| ||||||| |||||||| || || |||||||||||  | |||||||| || |||||  | |||||| | |        |  || |||     ||| |   |  || | |      || |||  ||| ||||    |    ||| |  ||       |||| ||||| || |                
GTTTTTGACCTTGGGGGTGGAACATTTGATGTTAGTATCTTGACAATTGATAATGGTGTTTTTGAGGTTCTTGCTACAAATGGAGATACTCATCTTGGAGgtgagaattttttttttttatgagtcttaataagaagaacttattatgtagaaaaatatattattctttccaccaaattctcctctgatgttaatgcttgctatgtctccttcgccttgccag

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaa--aatacttg--tgaccacgaatgaattgttctgaattgcat--taagaatgaattgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat
|| ||||| |||||||||||||| |||||||||||| ||||||| || || || || || |||||||||||  |||| ||||| ||||||||  ||||||||||  | | |||   ||  | | |    ||| || || |||   |  |  | | || | |||  |  ||      | ||           ||   || |      
GTGTTTGATCTTGGTGGTGGTACATTTGATGTCAGTATCTTGACAATCGACAATGGTGTTTTTGAGGTTCTTGCCACTAATGGAGACACTCATCTGGGAGgtaagcattgcttccttggtccctaccttatttttgtgcattttttcctttgtaagattagttacggtttaaggattcttggtgtgttgtagagacctct------

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaa-atacttgtgaccacgaatga------attgttctgaattgcattaagaatgaattgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat-----------
|| ||||||||||||||||| || || ||||||||  ||||||| ||||| || || || || ||||||||  | |||||||| |||||||| ||||||||| |  ||  || |  | ||  |||       ||  ||     |||||    ||| |||   ||  ||   | |   | ||  |      ||| |    || | | |           
GTTTTTGACCTTGGTGGTGGAACCTTCGATGTCAGCATCTTGACTATTGACAATGGTGTTTTCGAGGTTCTTGCTACAAATGGAGACACTCATTTGGGAGgtgaggatttttttctctactgatgctctttcatctttgctctttgcacattgaaagaaaatttacgagaggaaagttattatactgtggatgctcaaggttcaattctttcctgcag

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ17607 (Selaginella moellendorffii), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaatacttgtgaccacgaatgaattgttctgaattgcattaagaatgaattgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat
|| ||||| || |||||||||||||| ||||||||| ||||||| || || |||||||||||||| ||  | || || || || ||||| ||  | |||||||   |  |     ||         |  |||| |      |  | | |||  | | |  |  ||||                                 
GTGTTTGATCTCGGTGGTGGTACTTTCGATGTCAGTATCTTGACGATCGACAACGGAGTGTTTGAAGTGTTGTCTACCAACGGAGACACCCATCTTGGAGgtactttgatcaaagccttctccttttctttctta--cagctcgaaactgacatctaccaa--tgcag--------------------------------

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ29073 (Selaginella moellendorffii), 5'ss of exon 4
GTATTTGACCTTGGTGGTGGTACTTTTGATGTCAGTGTCTTGACCATTGATAACGGAGTGTTTGAGGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaatacttgtgaccacgaatgaattgttctgaattgcattaagaatgaattgttctgaattgcattgtgttcaataacaaatgattgctgtgccaat
|| ||||| || |||||||||||||| ||||||||| ||||||| || || |||||||||||||| ||  | || || || || ||||| ||  | |||||||   |  |     ||     |    | ||||   || ||    |||   |   |     | ||||                                 
GTGTTTGATCTCGGTGGTGGTACTTTCGATGTCAGTATCTTGACGATCGACAACGGAGTGTTTGAAGTGTTGTCTACCAACGGAGACACCCATCTTGGAGgtactttgatcaaagcct----tctccttttctttcttacagctcgaaactaacatctaccaatgcag--------------------------------

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|124732881|gb|EH824283.1|EH824283
EST:     GGTTCTCTCCACAAATGGTGACACTCACTTGGGAG                         GTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAGA
genomic: GGTTCTCTCCACAAATGGTGACACTCACTTGGGAGgtaaaatact ... atctgcgcagGTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAGA
EST: gi|124719608|gb|EH811010.1|EH811010
EST:     AATGGTGACACTCACTTGGGAG                         GTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAGA
genomic: AATGGTGACACTCACTTGGGAGgtaaaatact ... atctgcgcagGTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAGA
EST: gi|125237725|gb|EL251810.1|EL251810
EST:     GGTTCTCTCCACAAATAGGTGACACTCACTTGGGAG                         GTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAGA
genomic: GGTTCTCTCCACAAAT-GGTGACACTCACTTGGGAGgtaaaatact ... atctgcgcagGTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAGA
EST: gi|124903498|gb|EH977578.1|EH977578
EST:     GGTTCTCTCCACAAATGGTGACACTCACTTTGGGAG                         GTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAG
genomic: GGTTCTCTCCACAAATGGTGACACTCAC-TTGGGAGgtaaaatact ... atctgcgcagGTGAGGACTTTGACCACAGGATCATGGAGTACTTCATCAAGTTAATTAAG