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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttgtctccagctcctcttatttggtttcaaaataagtgactgatggatataataatactttgggtaatgatgagtttatcaatttgtatcgtctctgagtagtgtttctgtaaatttctgtatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCACGCCCACTTTTGACATTCTCATCCAATTTTGAAAACGATGCACACTGGAA

Basic information

species Arabidopsis thaliana
transcript AT3G15460.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G160458_T01 (Zea mays), 3'ss of exon 3
gtaatttgtctccagctcctcttatttggtttcaaaataagtgactgatggatataata-atactttgggtaatgatgagtttatcaatttgtatcgtctctgagtagtgtttctgtaaatttctgtatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCACGCCCACTTTTGACATTCTCATCCAATTTTGAAAACGATGCACACTGGAA
                   | |  | |||    ||    | | ||   |||   |  ||   |||   |   || |   || |     | ||    |      | || |     ||| |     ||| |  || ||||||||| ||||||||| |||| || || || || ||||||||||| |||||||||||| | ||||| ||  | ||||||||  |  |  | || |||||
------------------gtatgctatggcccaaatggtacttac-attggcagtcttatgcactgcagtctataacatgtatgcttttgtgatgagctaacaattaatcacgatgtga-----tgtttactgtagTTCACACCATGGAGGAGTTGAAGCTTACCGGTAACCATCTGAAAGGGTCACGCCCACTTCTTACATTTTCTACAAATTTTGATGAGCAACCTCATTGGAA

upper sequence: AT3G15460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G168176_T02 (Zea mays), 3'ss of exon 3
gtaatttgtctccagctcctcttatttggtttcaaaataagtgactgatggatataataatact-ttgggtaatgatgagtttatcaatttgtatcgtctctgagtagtgtttctgtaaatttctgtatggtga---agTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCACGCCCACTTTTGACATTCTCATCCAATTTTGAAAACGATGCACACTGGAA
                                         ||| | ||   || | |    || |    |       ||||||| |||||||||  | |    ||    |     | |||  |  | || |||   ||||||||| ||||||||| |||| || || || || ||||||||||| ||||| |||||| | ||||| ||  | ||||||||  |  |  | || |||||
--------------------------------------gtatgaataatacttacactgtggctgtcttatgcactccagtttat-aatttgtatgcttttgtcgtgacttaatgattaatcacgatgtgatgatgtagTTCACACCATGGAGGAGTTGAAGCTTACGGGTAACCATCTGAAAGGGTCACGGCCACTTCTTACATTTTCTACAAATTTTGATGAGCAACCTCATTGGAA

upper sequence: AT3G15460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G12700.2 (Glycine max), 3'ss of exon 5
---------------------------------------gtaatttgtctccagctcctcttatttggtttcaaaataagtgactgatggatataataatactttgggt--aatgatgagtttatcaatttgtatcgtctctgag-tagtgt--ttctgtaaatttctgt------------atggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCACGCCCACTTTTGACATTCTCATCCAATTTTGAAAACGATGCACACTGGAA
                                        || | | |  |  |||    | || | |  ||   ||   ||  |  |  || | || || || |  |   ||| |||| ||| |   ||| | ||  || |    | || |  || ||   || |||||                |  ||| ||||||||||||||  |||| || ||||||||||| || |||||||| || ||  |||||||||| ||| | ||||||||||| |||||||| |||||
gtaatattttcatctgattattatcataaggtcaatacaatactattttgcttgctatgatgatgtagagtcttgatctctgtatactacat-tcatgattctgtctgctgaattatgattttttatgtttctctcaacttttttctggtatcattttgctgatctctgtttttcctccactgctttccagTGCACACAATGGAGGAATTGAAGCTAACTGGAAATCAACTAAAAGGTTCTCGTCCTATTTTGACATTTTCAGCAAATTTTGAAAAAGATGCACATTGGAA

upper sequence: AT3G15460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G28320.2 (Glycine max), 3'ss of exon 4
--------------------------------------------------------gtaattt-gtctccagctcctcttatttggtttcaaaataagtgactgatggatataataatactttgggtaatgatgagt-ttatcaatttgtatcgt-ctctgagtagtgtttctgtaaatttctgtatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCACGCCCACTTTTGACATTCTCATCCAATTTTGAAAACGATGCACACTGGAA
                                                         | || | || | | | |    ||||    |           |   || ||||    || ||  |||| ||     | | | | | | |||| |    | || | | |  | | | | |    | |  |    |  ||||||||||||||||||  |||| || || |||||||| ||  ||||||| || ||| |||||||||| ||| | ||||||||||| |||||||| |||||
gtaatattctcatcttgtattcataaggttaatacaatatcaatttgcttgctatgatgatgtagtgttcggatttctttatactctagtcgtcattcttcttgttggagt--atgattttttgtgtttctctcactctcaactatttctgatatacttttacttatttctgtttttcctccactgctttccagTTCACACAATGGAGGAATTGAAGCTAACGGGAAATCACCTACAAGGTTCGCGTCCAATTTTGACATTTTCAGCAAATTTTGAAAAAGATGCACATTGGAA

upper sequence: AT3G15460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G51310.1 (Glycine max), 3'ss of exon 3
---------------------------------------gtaatttgtctccagctcctcttatttggtttcaaaataagtgactgatggatataataatactttgggta-atgatgagtttatcaatttgtatcg-tctctgagta---------gtgtttctgtaaatttctgtatgg------------tgaagTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCACGCCCACTTTTGACATTCTCATCCAATTTTGAAAACGATGCACACTGGAA
                                        ||   | | ||  |||    | |||| || |    ||  |||  |  |  |      | |  | | | |  || |||| ||| |   ||| | ||  ||||| |            ||  || |    |||||||| |              |  ||||||||||||||||||  |||| || || |||||||| ||  | ||||| || ||| |||||||||| ||| | ||||||||||| |||||||| |||||
gtaatagtttcatctgattatagtcataaggttaatacaatatcatttttcttgctatgatgatttagtgttctgatttgtgtatactctaatcggcatttttcttgttggattatgattttttgtgtttctctcactctctcaactatttctgatgtacttttactgatttctgtgtttcctccactgctttccagTTCACACAATGGAGGAATTGAAGCTTACGGGAAATCACCTACAGGGTTCCCGTCCAATTTTGACATTTTCAGCAAATTTTGAAAAAGATGCACATTGGAA

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|86031713|gb|DR327466.1|DR327466
EST:     GATGGTGAAGTCCC-TGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTG                         TTTCACACAATGGAG
genomic: GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTGgtaatttgtc ... tatggtgaagTT-CACACAATGGAG
EST: gi|86031712|gb|DR327465.1|DR327465
EST:     GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTG                         TTCACACAATGGAGGAGCTGAAACTCACTGGA
genomic: GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTGgtaatttgtc ... tatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGGA
EST: gi|86031714|gb|DR327467.1|DR327467
EST:     GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTG                         TTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCAC
genomic: GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTGgtaatttgtc ... tatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCAC
EST: gi|86031711|gb|DR327464.1|DR327464
EST:     GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTG                         TTCACACAATGGAGGAGCTGAAACTCACTGG
genomic: GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTGgtaatttgtc ... tatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGG
EST: gi|86031708|gb|DR327461.1|DR327461
EST:     GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTG                         TTCACACAATGGAGGAGCTGAAACTCACTGG
genomic: GATGGTGAAGTCCCCTGGTGGACCTTCCGTTAAGTTCTTGGTTAATGCTGgtaatttgtc ... tatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcaatttgtatcgtctctgagtagtgtttctgtaaatttctgtatggtgaagTTCACACAATGGAGGAGCTGAAACTCACTGGAAATCATCTGAAAGGTTCACGCCCACTTTTGACATTCTCATCCAATTTTGAAAACGATGCACACTGGAA
                                       tttctgt  CT-rich tract
     aatttgtat  TA-rich tract