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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTGCACAAGAAGTAGCAGAAGGAAAGCTCAATGATCATTTCCCTCTTGTTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgtaccttatatgcatggagatacattttgtacaatcctacacaagtgctaccagtggtggatcccaaaatatttcaatcggaggaacaatatttcatcgt...

Basic information

species Arabidopsis thaliana
transcript AT5G50950.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50950.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G010823_T01 (Zea mays), 5'ss of exon 3
AGCTGCACAAGAAGTAGCAGAAGGAAAGCTCAATGATCATTTCCCTCTTGTTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgt--accttatatgcatggagatacattttgtacaa-tcctacacaagtgctaccagtggtggatcccaaaatatttcaatcggaggaacaatatttcatcgt
 || ||  | || || ||||| |||||| |  ||||||| ||||| |||||| | ||||||||||| ||||| || || || || |||||||| ||||||||     |  ||  ||   | |||  |||  | ||| || | || ||   | | || |  |  |     | |  | |   |     |||    | | | |   
GGCAGCTGAGGAGGTCGCAGAGGGAAAGTTGGATGATCACTTCCCACTTGTTATCTGGCAAACTGGCAGTGGCACACAAAGCAACATGAATGCCAATGAGgtcggtgtcctacacaccca-atatttttacttcaaatcttccataaaaac-atcaattttaaagtagtatagctgttttttttttgaatggcaatccctgc-

upper sequence: AT5G50950.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G348729_T01 (Zea mays), 5'ss of exon 6
AGCTGCACAAGAAGTAGCAGAAGGAAAGCTCAATGATCATTTCCCTCTTGTTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgtaccttatatgcatgga-gatacattttgtacaatcctacacaagtgctaccagtggtggatcccaaaatatttcaatcggaggaacaatatttcatcgt
 || ||  | || || ||||| |||||| |  ||||||| ||||| |||||| | ||||||||||| ||||| || || || || |||||||| ||||||||   |    | |||     |||  |||  | |||  || | ||        || |  |  |     | |  | |   | |||     | |   |  |   
GGCAGCTGAGGAGGTCGCAGAGGGAAAGTTAGATGATCACTTCCCACTTGTTATCTGGCAAACTGGCAGTGGCACACAAAGCAACATGAATGCCAATGAGgttggtgtcctacatatccaatatttttactccaaatcttc-cataaaacgtcaattttaaagtagtatagctgttgtttggaatggtagtccctgctaaa

upper sequence: AT5G50950.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G01930.2 (Glycine max), 5'ss of exon 3
AGCTGCACAAGAAGTAGCAGAAGGAAAGCTCAATGATCATTTCCCTCTTGTTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgtaccttatatgcatggagatacattttgtacaatcctacacaagtgctaccagtggtggatcccaaaatatttcaatcggaggaacaatatttcatcgt---------
||| |||||||||||||| || ||||| || || || ||||| ||||| ||||||||||||||||| ||||| || || ||||| ||||||||||| |||||   |||  | |            ||  ||| ||  |     ||    |||     |  | |  ||  |  |  |  |  |      |||  |||   |         
AGCAGCACAAGAAGTAGCCGAGGGAAAACTAAACGACCATTTTCCTCTCGTTGTATGGCAAACTGGGAGTGGCACTCAAAGTAACATGAATGCTAACGAGgttaattagttac---------tgcttcctactattatttgtcagctgcacctaaccttaaccttaaggttctgtatacaaacatgttatagctcacatttaaggatct

upper sequence: AT5G50950.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G02040.2 (Glycine max), 5'ss of exon 3
AGCTGCACAAGAAGTAGCAGAAGGAAAGCTCAATGATCATTTCCCTCTTGTTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgtaccttatatgcatggagatacattttgtacaatcctacacaagtgctaccagtggtg---gatcccaaaatatttcaatcggaggaacaatatttcatcgt
||| |||||||||||||| || ||||| || || || ||||| ||||| ||||||||||||||||| ||||| || || ||||| ||||||||||| |||||   |||   |        | | |  |    | ||||||  |  |  |   ||  |      |     |  |  | ||  |      || |||  |||   |
AGCGGCACAAGAAGTAGCCGAGGGAAAACTAAACGAACATTTTCCTCTCGTTGTATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCTAACGAGgttagttactagttaattagtgcttcct---tattcctactaatattttttgagctgcacctaacgttgatgttctgcatacaataatactatagctcacaat

upper sequence: AT5G50950.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G01920.1 (Glycine max), 5'ss of exon 3
AGCTGCACAAGAAGTAGCAGAAGGAAAGCTCAATGATCATTTCCCTCTTGTTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgtaccttatatgcatggagatacattttgtacaatcctacacaagtgctaccagtggtggatcccaaaatatttcaatcggaggaacaatatttcatcgt
||| ||||||||||| || || ||||| || || || ||||| ||||| ||||||||||||||||| ||||| || || ||||| ||||||||||| |||||   |||  | |       |||  ||  |      || |||     ||    ||  || ||   || || ||  |           |  || | |   |
AGCGGCACAAGAAGTGGCCGAGGGAAAACTAAACGACCATTTTCCTCTCGTTGTATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCTAACGAGgttaattagttactgcttcctactattatttttgagctgcacctaaccttaatgttctgcatataaatatgttatagctaacatttaaggatcttagatt

upper sequence: AT5G50950.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 4
AGCTGCACAAGAAGTAGCAGAAGGAAAGCTCAATGATCATTTCCCTCTTGTTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgtacct-tatatgcatggagatacattttgtacaatcctacacaagtgctaccagtggtggatcccaaaatatttcaat--cggaggaacaatatttcatcgt
||| || ||||||||  |||| ||||| || ||||||||||| || || ||  ||||||||||||| ||||| || || ||||| |||||||| |||||||||    |   |  ||| || | | | |  |    |   || |   |      |   |  |||   |   |||||| ||  ||  ||||   | ||  |    
AGCAGCCCAAGAAGTGTCAGAGGGAAAACTAAATGATCATTTTCCGCTCGTCATATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCCAATGAGgtaaggatcggtttatgtagcttcctgtcttctggtttgacgctgctttagttatatgcagatgg-accttatttcgattccgatggaaatttgttctaaa--

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|124933150|gb|EL010339.1|EL010339
EST:     ATATGAATGCTAATGAG                         GTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTAGAAAA
genomic: ATATGAATGCTAATGAGgtaccttata ... ctttttacagGTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGT-GAAAA
EST: gi|116422670|gb|EG465262.1|EG465262
EST:     ATATGAATGCTAATGAG                         GTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAA
genomic: ATATGAATGCTAATGAGgtaccttata ... ctttttacagGTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAA
EST: gi|116443356|gb|EG485948.1|EG485948
EST:     TTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAG                         GTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAA
genomic: TTGTATGGCAAACTGGTAGTGGGACGCAGAGTAATATGAATGCTAATGAGgtaccttata ... ctttttacagGTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAA
EST: gi|116456305|gb|EG498897.1|EG498897
EST:     ATATGAATGCTAATGAG                         GTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAA
genomic: ATATGAATGCTAATGAGgtaccttata ... ctttttacagGTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAA
EST: gi|116428316|gb|EG470908.1|EG470908
EST:     ATATGAATGCTAATGAG                         GTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGNNNNN
genomic: ATATGAATGCTAATGAGgtaccttata ... ctttttacagGTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTG-AAAA