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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttacagaatgcattgggtcaaccaacaacccgttggataattcagttgaaatctaaatctaaaaattgaattttctgagtttgcagGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA

Basic information

species Arabidopsis thaliana
transcript AT2G30710.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G30710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G13330.2 (Glycine max), 3'ss of exon 6
-----gtg-agttacagaatgcattgggtcaaccaacaacccgttggataattcagt-tgaaatctaaatctaaaaattgaattttctgagttt--gcagGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA
      || |  |    ||  | |    |  ||  ||||    ||    ||||   | |   || |   |  |  ||   ||||  |    |||   |||||||||| ||||||| ||||| |||||||||||||| |||||||| || || ||||| ||  | ||  ||||||| |||||| || | || || | | | 
atgctctgcaactctttaacccttgtcattgacttacaagtgcttactaaatttgttctcttattttgtttcactaacacaattcccaatcttttaccagGGCCATTCGACATCCTGCAAGTGGATATGTTCAGGGGATAAATGATCTTGTTACGCCATTTTTGGTTGTTTTCTTATCAGAACATTTTGAAGGGGATATC

upper sequence: AT2G30710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G05350.1 (Glycine max), 3'ss of exon 6
------gtg-agttacagaatgcattgggtcaaccaacaacccgttggataattcagt-tgaaatctaaatctaaaaattgaattttctgagttt--gcagGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA------
       || |  |    ||  | |    |  ||  ||||   | |   |||||   | |   || |   |  |  ||   ||||  |    |||   |||||||||| ||||||| ||||| |||||||||||||| |||| ||| || || || |  ||  | |||  |||||| ||||||||| |  | || | | |       
agaactctgcaactctttaacccttgtcattgacttacaaat-gcttactaatttgttattttattttgtttcactaacacaattcccaatcttttaccagGGCCATTCGACATCCTGCAAGTGGATATGTTCAGGGGATAA-TGATCTTGT-ACACATTTT-TGGTG--TTTCTTATCAGAATATTTGAAGGG-GATATCAATAAT

upper sequence: AT2G30710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G42180.1 (Glycine max), 3'ss of exon 6
-----gtgagttacagaatgcattgggtcaaccaaca---acccgttggataattcagttgaaatctaaatctaaaaattgaattttctgagttt--gcagGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA
      ||  |||         ||     ||         ||   ||| ||  |   ||| | |  ||  | ||   ||  | ||| |||| |||    ||||| ||| ||||||| ||||| |||||||||||||| |||||||| || || ||||| ||  ||||  ||||| | ||||||||  | || || ||  ||
ttcttctgcattatccttcttgtttaactaatttttgctcactaattgcatgttattgttaatagatat-tttacttatatagtttcctgatttttgctagGGCAATTCGACATCCTGCAAGTGGATATGTTCAGGGGATAAATGATCTTGTTACGCCATTTTTAGTTGTTTTCCTATCAGAATACTTGGAAGGGGGCATA

upper sequence: AT2G30710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA15G03200.1 (Glycine max), 3'ss of exon 6
-----gtgagttacagaatgcattgggtcaaccaacaaccc---gttggataattcagttgaaatctaaatctaaaaattgaattttctgagtt-tgc-agGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA
      ||  |||         ||     ||        ||    ||| ||  |   ||| | |  ||  | ||   ||    ||| |||| || ||| ||||||||| | ||||| ||||| |||||||||||||| |||||||| || || ||||| ||  ||||  ||||| | ||||||||  | || || ||  ||
ttcttctgcattatccttcttgtttaactaatttttgctccctaattgtatgttattgttaatagttat-tttacttatatggtttcctgatttctgctagGGCCATTCGGCATCCTGCAAGTGGATATGTTCAGGGGATAAATGATCTTGTTACGCCATTTTTAGTTGTTTTCCTATCAGAATACTTGGAAGGGGGCATA

upper sequence: AT2G30710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
--------gtgagttacagaatgcattgggtcaaccaacaacccgttggataattcagttgaaatctaaatctaaaaattgaattttctga---gtttgcagGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA
         ||  ||  |   ||   | |  |||| |     ||||    ||||| |||     |   || ||     |    ||| ||||   |||| |||||| ||| ||||||| ||||| || |||||||| ||||||||||| || || || || ||  ||||| ||||||| ||||||||  |||| ||  |  | 
tgtgggttatggttttgaagctgtccttgtccaacta-tgttccgtatattaatttagtattggttgtaaccttgtg-taatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttggataattcagttgaaatctaaatctaaaaattgaattttctgagtttgcagGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA
                         atctaaa  putative branch site (score: 3)
                                       ttttctg  putative PPT
              ttgaaatctaaatcta  TA-rich tract