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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagctcaaaccaagatcgagcattttcggttaatggatggtagttttagctacatttgttttggttcagtttgtgttatttaatcttgtgagtaccggtttacagGAAGCTATGATTAAGGATACATTGGAACGAGCAAGAGAACCAAACTTGAATCTTAAAGGGTTTCTTCAGAATGCATATGTTCATCCTGTTTTTAAAGACG

Basic information

species Arabidopsis thaliana
transcript AT1G62320.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G62320.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA13G10490.1 (Glycine max), 3'ss of exon 11
gttagctcaaaccaagatcgagcattttcggttaatggatggtagttttagctacatttgttttggttcagtttgtgtt-atttaatcttgtgagtaccggtttacagGAAGCTATGATTAAGGATACATTGGAACGAGCAAGAGAACCAAACTTGAATCTTAAAGGGTTTCTTCAGAATGCATATGTTCATCCTGTTTTTAAAGACG
    |  || ||        || || ||  || |||  ||      ||    ||||  | |  |  ||||     | || || |  ||||           | | |||||||| ||||| || |||||||| |||||| ||| |||||| ||| ||||  | ||||| | |||||||||||| || |||||||| |||||||| ||| 
----gagcacactgta--taagtatctt--gtaaatcaatttggacttggtatacaagtttcctctttcatggaattttgatgttgtcttcccgaactatttatgcagGAAGCAATGATGAAAGATACATTAGAACGAACAACAGAACCTAACCTGAACTTGAAAGGTTATCTTCAGAATGCCTACGTTCATCCAGTTTTTAAGGACA

upper sequence: AT1G62320.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G16230.3 (Glycine max), 3'ss of exon 6
gttagctcaaaccaagatcgagcattttcggttaatggatggtagttttagctacatttgttttggttcagtttgtgttatttaatcttgtgagtaccggtt-tacagGAAGCTATGATTAAGGATACATTGGAACGAGCAAGAGAACCAAACTTGAATCTTAAAGGGTTTCTTCAGAATGCATATGTTCATCCTGTTTTTAAAGACG
      | |   |||     || ||  |  || |||  ||      ||    ||||  | |  |  ||||     | ||  |    | | |    || | || | |||||||| ||||| || |||||||| ||||| |||| |||||| ||| ||||  | ||||| | |||||||||||| |||||||| || |||||||| ||| 
------tgagcacaatgctaagtatcat--gtaaatcaatttggacttggtatacaagtttcctttttcatggaattttgatgttgcctttccaaactgtttatgcagGAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAACTTGAAAGGTTATCTTCAGAATGCCTATGTTCACCCAGTTTTTAAGGACA

upper sequence: AT1G62320.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 11
gttagctcaaacca--agatcgagcatt--ttcggttaatggatggtagttttagctacatttgttttggttcagtttgtgttatttaatcttgtgagtaccggtttacagGAAGCTATGATTAAGGATACATTGGAACGAGCAAGAGAACCAAACTTGAATCTTAAAGGGTTTCTTCAGAATGCATATGTTCATCCTGTTTTTAAAGACG
  ||   | | |||  | ||   || |   | |  || ||   |   |   | | |   ||   ||||  ||   |||  |||  ||    || | |  |   ||  ||||||||| ||||| || || |||||||||||||| | ||| || ||||| ||  | ||||  |  ||||||||||||||||||||||| ||||| ||||   
--taatactatccataaaatgatgcctgaatcctttttatacttataatactgaaccttatcatttttaatt---tttacgttgctt----ttataa--aattgtaaacagGAAGCGATGATGAAAGACACATTGGAACGAGCTACAGATCCCAACTTTAACTTGAAAGCTTACCTTCAGAATGCATATGTTCATCCAGTTTTCAAAGCTA

upper sequence: AT1G62320.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA17G01400.1 (Glycine max), 3'ss of exon 10
--------------------------------------------------------------------------gttagctcaaaccaagatcgagcattttcggttaatggatggt---agttttagctacatttgttttggttcagtttgt-gttatttaatcttgtgagtaccggtttacagGAAGCTATGATTAAGGATACATTGGAACGAGCAAGAGAACCAAACTTGAATCTTAAAGGGTTTCTTCAGAATGCATATGTTCATCCTGTTTTTAAAGACG
                                                                           |  |||   || | | ||     |       | ||  |       |   ||    |||  | |  | | ||| |   | | |||      || ||   |   ||  ||||||||| ||||| || || |||||||||||||| | ||| || ||||| ||  | ||||  |  ||||||||||| ||||||||||| ||||| ||||   
gtatgtcaattaatcattctgatggctaataatcctacatcacacgtttgtgaccttgattttccaagttgcatctatgctagtactacgttcatat-taccaaacttataaacaacctaaaccttcatcacacgtttcctcgctcattgaattggtatgctgctttttgtaaaattgtaaacagGAAGCGATGATGAAAGACACATTGGAACGAGCTACAGATCCCAACTTTAACTTAAAAGCTTACCTTCAGAATGCTTATGTTCATCCAGTTTTCAAAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatttgttttggttcagtttgtgttatttaatcttgtgagtaccggtttacagGAAGCTATGATTAAGGATACATTGGAACGAGCAAGAGAACCAAACTTGAATCTTAAAGGGTTTCTTCAGAATGCATATGTTCATCCTGTTTTTAAAGACG
                           atttaat  putative branch site (score: 4)
                   tttgtgttatttaat  TA-rich tract