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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTGTGATTTCTGGGCCCACCGGCGCAGGAAAGAGCAGACTTGCCATGGAGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttctcacttgtactctctaaataagttacagctcacttgaaatttgaaaccttgttgaggataattgctaaagttgaagtttttagttttatcaattccagaacttcgcatctatgtttggtgtggattaaaaaggttcttgcttttgttttaccccaatcacag

Basic information

species Arabidopsis thaliana
transcript AT5G20040.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G20040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA13G34680.1 (Glycine max), 5'ss of exon 1
GATTGTGATTTCTGGGCCCACCGGCGCAGGAAAGAGCAGACTTGCCATGGAGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttctcacttgtactctctaaataagttacagctcacttgaaatttgaaaccttgttgaggataattgctaaagttg-aagtttttagttttatcaattccagaacttcgcatctatgtttggtgtggattaaaaaggttcttgcttttgttttaccccaatcacag
||||||||||||||| ||||||||  | || |||||| | || ||  |||| ||||| ||||| ||||| ||||||||| ||||||| |||||||| |||||  || | | || |   ||   | |  | | | |       ||||   |||   |    ||    | |    |    | | | | | ||||||  || | |                                                                       
GATTGTGATTTCTGGACCCACCGGTTCCGGCAAGAGCCGCCTCGCATTGGAACTCGCAAAGCGCCTCAACGGCGAAATCGTCAGTGCCGACTCCGTCCAGgta-atatgcacattcaaacaaac-attttattcagcttcttcttgtgcttttgcattgcgtatgaggtggcagtggtactcgtagggttttaggattttaa-----------------------------------------------------------------------

upper sequence: AT5G20040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv19s0014g01630.t01 (Vitis vinifera), 5'ss of exon 1
GATTGTGATTTCTGGGCCCACCGGCGCAGGAAAGAGCAGACTTGCCATGGAGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttctcacttgtactctctaaataagttacagctcacttgaaatttgaaaccttgttgaggataattgctaaagttgaagtttttagttttatcaattccagaacttcgcatctatgtttggtgtggattaaaaaggttcttgcttttgttttaccccaatcacag
||| ||||| || || ||||||||||| |||||||| || |||||  ||||||| || ||||| |||||||| ||||| |||||||| ||||| ||||||||       |      |   ||| | |     || |   |   |||   | ||     |||  ||| |  |  |  || |   | |      |  ||||   ||                                                                    
GATAGTGATATCCGGTCCCACCGGCGCCGGAAAGAGTAGGCTTGCATTGGAGCTGGCGAAGCGCCTCAATGGAGAAATTATCAGTGCGGACTCGGTTCAGgtaaggcacc------gagttcttttaccgttttcctcttggattgccctctgtttggttgccgagaaagaaagggaaggacaatgggaagggaattatgtcttgt------------------------------------------------------------------
















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|86052818|gb|DR348575.1|DR348575
EST:     AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAG                         GTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
genomic: AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttc ... ccaatcacagGTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
EST: gi|86052820|gb|DR348577.1|DR348577
EST:     AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAG                         GTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
genomic: AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttc ... ccaatcacagGTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
EST: gi|86052816|gb|DR348573.1|DR348573
EST:     AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAG                         GTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
genomic: AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttc ... ccaatcacagGTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
EST: gi|86052815|gb|DR348572.1|DR348572
EST:     AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAG                         GTGTATAAWGGCCTTGATGTTGGATCAGCCAAGCCCATCAGATAGCGATAG
genomic: AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttc ... ccaatcacagGTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCC-ATCAGATAGCGATAG
EST: gi|86052814|gb|DR348571.1|DR348571
EST:     AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAG                         GTGTATAAAGGSCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
genomic: AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttc ... ccaatcacagGTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
EST: gi|86052822|gb|DR348579.1|DR348579
EST:     AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTRACTCCGTTCAG                         GTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
genomic: AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttc ... ccaatcacagGTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
EST: gi|86052817|gb|DR348574.1|DR348574
EST:     AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAG                         GTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA
genomic: AGCTCGCTAAGCGACTCAATGGCGAAATCATCAGTGCTGACTCCGTTCAGgtccattttc ... ccaatcacagGTGTATAAAGGCCTTGATGTTGGATCAGCCAAGCCATCAGATAGCGATAGA