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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatatctgaaagatttataaagtttcatgttgatttacattgggtttttaagttgttgattcgtcttaatatatatgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGATGCTCCTAGTTATCTTCCCGTTATGCAACATGCCAAAAACCGAGCTCTGC

Basic information

species Arabidopsis thaliana
transcript AT5G10540.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G10540.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G02480.1 (Glycine max), 3'ss of exon 5
--gtataatatctgaaagatttataaagtt-tcatgttgatttacattgggtttttaagttgttga-ttcgtcttaat--atatatgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGATGCTCCTAGTTATCTTCCCGTTATGCAACATGCCAAAAACCGAGCTCTGC
  || | ||||    | | ||| ||   || | || ||         ||    |      |||||| |||   ||| |  ||     |    |||| ||||||| ||| || ||||| | ||| |||||| | |||||| | ||||||||||||| | || | ||||||||||||||    |||||  || |||
gtgtgtcatattgacatgttttgtacttttattatattctcaaggtatgaaaatcagctatgttgagttctggttacttaatgggcaaatgcagGGGCATGAAAATGCCACCGCTGAGAATGGGCCATGGATAATTACATTAGATGCTCCTAGTTTTATTGCTGTTATGCAACATGCTCGCAACCGTTCTTTGC

upper sequence: AT5G10540.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G33490.1 (Glycine max), 3'ss of exon 5
gtataatatctgaaagatttataaagtttcatgttgattt-acattgggttt--ttaagttgttgattcgtcttaatatatatgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGATGCTCCTAGTTATCTTCCCGTTATGCAACATGCCAAAAACCGAGCTCTGC
||||   || |  |    || |    |||  ||  | | | ||| |  | |   || |||| ||||||   |||||     |    |  |||| ||||||| ||| || ||||| | ||| |||||| | |||||| | ||||||||||||| | || | ||||||||||||||    |||||  || |||
gtatgtcatgttgacatgttttgttatttgctgaaggtatgacaatcagctatgttgagtt-ttgatta--cttaacgggcacatgc--agGGGCATGAAAATGCCACCGCTGAGAATGGGCCATGGATAATTACATTAGATGCTCCTAGTTTTATTGCTGTTATGCAACATGCTCGCAACCGTTCTTTGC
















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|116452131|gb|EG494723.1|EG494723
EST:     GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAG                         GGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
genomic: GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAGgtataatatc ... atgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
EST: gi|116476839|gb|EG519431.1|EG519431
EST:     GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAG                         GGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
genomic: GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAGgtataatatc ... atgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
EST: gi|116476837|gb|EG519429.1|EG519429
EST:     GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAG                         GGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
genomic: GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAGgtataatatc ... atgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
EST: gi|116452130|gb|EG494722.1|EG494722
EST:     GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAG                         GGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
genomic: GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAGgtataatatc ... atgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
EST: gi|116452113|gb|EG494705.1|EG494705
EST:     GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAG                         GGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
genomic: GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAGgtataatatc ... atgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
EST: gi|116452116|gb|EG494708.1|EG494708
EST:     GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAG                         GGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT
genomic: GGTTGCCACCATCTGCACTTGGATTGTTCGCACAAGCAGCTGTTTCCAAGgtataatatc ... atgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatttacattgggtttttaagttgttgattcgtcttaatatatatgacccaagGGCCATGAAACTGCAACTGCTGACACTGGACCATGGCTCATTACACTCGATGCTCCTAGTTATCTTCCCGTTATGCAACATGCCAAAAACCGAGCTCTGC
                                  tcttaat  putative branch site (score: 3)
                                  tcttaatatatatga  TA-rich tract