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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag

Basic information

species Arabidopsis thaliana
transcript AT2G45290.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgta-----tctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag
||||   |||||||| |||||||||||| |||| ||||||||||| ||||| ||||||| |||||| ||||| ||||| |||||||| ||  | || |||||       ||| ||| | | ||  ||  ||   |  |||   | | | | || |  | |||     |||    | ||| |             
GCATACAATCTGGGTTAAGAATGGAAACGATGGCTATGATGAGATTCGTGCCGCCATTAAGGAAGCAAAGGCGGTAACTGACAAGCCAACACTAATCAAGgttagattcctgtacattctgttatgctgtgt-tttgttatagagcttatcatatt-tagccaa-aatgtactctttttag-------------

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os04g19740.1 (Oryza sativa), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag
||||  ||||||||| || ||||| ||||  || |||||||| ||||||||||| |||| |||||| ||||| || | ||||||||| ||| | || |||||  | ||    ||       |  | |  || ||    | | | |    ||| |   |         |  || |||        | |||
GCATACTATCTGGGTGAAAAATGGTAACACAGGGTATGATGACATCCGTGCTGCAATTAAGGAAGCAAAGGCAGTCAAAGACAAGCCAACTCTTATCAAGgtgacagctagtttgcc---actttaatttctttgcttatcatctcgattca-gttttaccagacagaaggtgttgatcttccatatag

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G033208_T01 (Zea mays), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag
|||    |||||||| |||||||| ||||  || |||||||| ||||| || ||||||| ||| || ||||| || || ||||||||||| ||||| |||||   ||     || ||||     || |  | ||| |     || | | |       | |  ||||  |    ||    |    |||||
GCACACGATCTGGGTTAAGAATGGGAACACCGGATATGATGACATCCGCGCAGCCATTAAGGAGGCGAAGGCAGTTACTGACAAGCCCACCTTGATCAAGgt---tg---gtttcttttgtatctgcaacctttatgtttttttcgctgtgg-attttataatgttggtctaatttatactccttttag

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag------------------
||||||||| ||||||||||||||||| ||||| |||||||| || ||||||||||||| |||||| || ||||| | |||||| ||||| || || |||||    |   |||  || | || ||||    ||  |   |  | ||  ||  | |       |   |||  |  | || |||| ||||                   
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgt--tagtttactaattgtggcaatga---tatgcatagatttctgg-cttgtagttacca-taacaatcataatctgtcatgatttatagggattcttttaaacta

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G43990.1 (Glycine max), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgt-atctgcacacttt-----ttttagcca-tgaactcattaag--caacgtttgatctcatggc--ctttggtgttaattgtttt-gtggcatggtttag
|||||| || ||||| ||||||||||| | ||| |||||||| || ||||| |||||||  ||||| |||||||| | |||||| ||||||||||| ||||| |  | ||     |     ||  ||| | || | | || ||   || | |||       | |   | |||    || | ||    || ||||  | |  
GCATGTAATTTGGGTGAAGAATGGAAATACTGGATATGATGAAATTCGTGCAGCCATTAAAGAAGCAAAGGCTGTCAAAGACAAACCCACTTTGATCAAGgttagttacatgaactgaagattgaagcaaatggattgatcaaaaacatcatttatgtcactagttaccttgagtatactagtgaaagtagcataatgtg-

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G38720.1 (Glycine max), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgt-atctgcac--actttttttagccatgaactcatt------aagcaacgtttgatctcatggcctttggtgttaattgttt--tgtggcatggtttag------------------------------------------------------------------------------------------
|||||| || ||||| ||||||||||| | ||| |||||||| || ||||| ||||||| |||||| |||||||| | |||||| |||||| |||| ||||| |  | ||   |||   | | |     || | |||      || || | |||       | |    | | ||  | |  |    || ||||  | |                                                                                            
GCATGTAATTTGGGTGAAGAATGGAAATACTGGATATGATGAAATTCGTGCAGCCATTAAGGAAGCAAAGGCTGTCAAAGACAAACCCACTATGATCAAGgttagttacatgaactgaatattgaagcaaattgatttatccaaaacatcatttacgtcactagttacttgagtatactagtggaagtagcataatgtgatttctgtgagcgaaagtaaaccatttttatttgctatttttggggggtattttatcagctttatgttcatctgtgattactatttcacag

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv16s0022g01440.t01 (Vitis vinifera), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag--------------------------
|||||| || ||||| |||||||| |||| ||| |||||||| || ||||||||||| | |||||| |||||||| | |||||||||||| |||||||||||   | | |     |  |    | |   |   | |  |  |||  | || |   | | |  |     || | |   |      ||||                           
GCATGTGATTTGGGTGAAGAATGGTAACACTGGGTATGATGAAATTCGTGCTGCCATCAAGGAAGCAAAGGCTGTTAAAGACAAGCCCACATTGATTAAGgtcatttctccaacatgatctttaaggttttggtcaagagagttccaactta-aacttcttttcccccttttctgaagttggactttacctctataaacttctctgtttatgcag

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv15s0048g00370.t01 (Vitis vinifera), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgt------atctgcacacttttttta-gccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttg--tggcatggtttag--
||||||||||||||| ||||||||||| | ||| ||||||||||| ||||||||||| | |||||| ||| |||| | |||||| |||||||| || |||||      || |  |||      | |    | |        ||||||| ||        |   ||||     |||    || |      || || |    
GCATGTTATCTGGGTGAAGAATGGAAATACTGGCTATGATGAGATTCGTGCTGCCATCAAGGAAGCAAAGACTGTCAAAGACAAACCCACTTTAATCAAGgtctaacaatttttacatacgcgtaacattacgtttctggaaagcaacattaaggagggttaacttttaaagtaaagacttggaacaatatagtctcttt

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ07729 (Selaginella moellendorffii), 5'ss of exon 4
GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag
|||    |||||||||||||| ||||||| ||| |||||||||||  | |||||||||   ||||||||| |  | | ||||||||| ||  |||| |||||||  |     || || |    ||    |||||        |||  |||| | |                                  
GCACACAATCTGGGTAAAGAACGGAAACACTGGCTATGATGAGATTAGAGCTGCCATTGCTGAAGCTAAGACGATTAAAGACAAGCCAACCATGATCAAGgtatacgagtcattattgttatgatttg-tcattgccttctattttttctcttag----------------------------------

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|116464596|gb|EG507188.1|EG507188
EST:     CTGCCATTAGGGAAGCTAAG-CTGTAACAGACAAGCCCACTTTGATTAAG                         -TCACTACTACAATTGGTTATGGTTCTCCCAACAAGGCAAACTCATACAGT
genomic: CTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcac ... catggtttagGTCACTACTACAATTGGTTATGGTTCTCCCAACAAGGCAAACTCATACAGT
EST: gi|116457540|gb|EG500132.1|EG500132
EST:     CTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAG                         GTCACTACTACAATTGGTTATGGTTCTCCCAACAAGGCAAACTCATACAGT
genomic: CTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcac ... catggtttagGTCACTACTACAATTGGTTATGGTTCTCCCAACAAGGCAAACTCATACAGT