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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttattttagtttcgtgattcaattacctgttcgtttcgtaagttgtacaatttgattgattataactaatgtgcagATAAACAACCGGGCAATACAAGACATGCATATATTTGGTGATCCTATGCGGGTTCCTATAGTTATAATTGAACGTGTTTGGAATGCACCAAGGCGTACGT

Basic information

species Arabidopsis thaliana
transcript AT1G09980.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09980.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA17G26570.1 (Glycine max), 3'ss of exon 10
--------gtttgttattttagtttcgtga---ttc----aattacctgttcgtttcgtaag---ttgtaca-atttgattgattataactaatgtgcagATAAACAACCGGGCAATACAAGACATGCATATATTTGGTGATCCTATGCGGGTTCCTATAGTTATAATTGAACGTGTTTGGAATGCACCAAGGCGTACGT
          ||     |||| ||| | ||   |||    |  | |||   | | || |||    ||| | |      ||| ||     | | | ||||||| ||||||||| |||| ||||||||||||||||| |||||||||    |  | || || || ||  ||||||||||   |||||||||| | || ||  
atataatctcttaaccatttaattttgagaccattcctggacctccctaagcctatcctaacaatttgcatatggcctattaatggattcaattttgcagATTAACAACCGGTCAATTCAAGACATGCATATATTCGGTGATCCTTCAAGCATACCAATTGTCATTGTTGAACGTGTGATGAATGCACCACGTCGGACTA

upper sequence: AT1G09980.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv12s0055g00430.t01 (Vitis vinifera), 3'ss of exon 9
gtttgttattttagtttcgtgattcaattacctgttcgtttcgtaagttgtacaatttgattgattataactaatgtgcagATAAACAACCGGGCAATACAAGACATGCATATATTTGGTGATCCTATGCGGGTTCCTATAGTTATAATTGAACGTGTTTGGAATGCACCAAGGCGTACGT
||   |||||    |  |  |   || |  ||  |        ||  ||| |   | |||      ||   |    ||||||| ||||||| | |||| ||||||||||| |||||||| ||||||   ||  |||||||  | ||  | |||||||||  |||||  ||| |||||||  
gtgacttattactatcacacggagcattatccaatattccatatagattggagcttatgaacagacatcttttccatgcagATCAACAACCAGTCAATTCAAGACATGCACATATTTGGAGATCCTTCCCGTATTCCTATTATAATTGTAGAACGTGTTGTGAATGTGCCACGGCGTACTA
















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|86060117|gb|DR355874.1|DR355874
EST:     TTGCATCCACCCGCGCTGAACTTCACCGTCGAAGTATTGCACAAATGCGG                         ATAAACAACCGGGCAATACAAGACATGCATATATTTGGTGATCCTATGCGG
genomic: TTGCATCCACCCGCGCTGAACTTCACCGTCGAAGTATTGCACAAATGCGGgtttgttatt ... taatgtgcagATAAACAACCGGGCAATACAAGACATGCATATATTTGGTGATCCTATGCGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attacctgttcgtttcgtaagttgtacaatttgattgattataactaatgtgcagATAAACAACCGGGCAATACAAGACATGCATATATTTGGTGATCCTATGCGGGTTCCTATAGTTATAATTGAACGTGTTTGGAATGCACCAAGGCGTACGT
                                          aactaat  putative branch site (score: 2)
                           aatttgattgattata  TA-rich tract