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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttttccaaatgttaagatatatgcttattttcttgtgtacaagtatgtagtcaatttctaatcattgctatcttgtcttgctctgcaatttgttttattatacagGGCACATACAGCACCCAGATATTCTCACTGGCAGTTCTTTTGTCTAGCATGTTCATTTATAACCAG

Basic information

species Glycine max
transcript GLYMA13G24260.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G24260.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g20410.1 (Oryza sativa), 3'ss of exon 2
-gtcagttttccaaatgttaagatatatgcttattttcttgtgtacaagtatgtagtcaatttctaatcattgctatcttgtcttgctctgcaatttgttttattatacagGGCACATACAGCACCCAGATATTCTCACTGGCAGTTCTTTTGTCTAGCATGTTCATTTATAACCAG
      ||||     ||| | |||  | |   | |   |  || | ||| |     | ||| | || ||  | |  |  || |||| |          |  | ||   |||||||| |||||||  |||||||||||||||||||| ||  | || || ||||| || ||||| |||
ccaagattttgtttttgtgatgatgcaagaaaagtag-taatgaaaaagaaaacttttaatctgtagtctatacattactgacttgtt----------tcctctttggcagGGCACTTACAGCATTCAGATATTCTCACTGGCAGTCCTACTTTCAAGTATGTTTATATATAATCAG

upper sequence: GLYMA13G24260.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G46070.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcagttttccaaatgttaagatatatgcttattttcttgtgtacaagtatgtagtcaatttctaatcattgctatcttgtcttgctctgcaatttgttttattatacagGGCACATACAGCACCCAGATATTCTCACTGGCAGTTCTTTTGTCTAGCATGTTCATTTATAACCAG
    ||    || || |||    || ||||     || ||  |   | | | ||  |||    |  |  ||  || | ||| ||| |   |  |   |    ||  |||||| || |||||||| || ||||||||| | || ||||||||||| ||||||||| | ||||| |||
----gtaagtcacat-ttagcgaatttgct---actcatgaatttga-tctatatccaagaattcgtgtttaataacatgttttgattccctttacttcgatttccacagGGTACCTACAGCACTCAAATATTCTCATTAGCTGTTCTTTTGTCAAGCATGTTCGTGTATAATCAG

upper sequence: GLYMA13G24260.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 2
gtcagttttccaaatgttaagatatatgcttattttcttgtgtacaagtatgtagtcaatttctaatcattgctatcttgtcttgctctgcaatttgttttattatacagGGCACATACAGCACCCAGATATTCTCACTGGCAGTTCTTTTGTCTAGCATGTTCATTTATAACCAG
            |   ||  ||||| || || | |   | | |  |  |   | |  || | | | | |||    | |  |  |   ||    |||  ||| ||  |||||| ||||||||||| ||||| |||||  |||| || ||||| ||||| |||||||| || ||||||
---------tttagctttttgatat-tgtttctatctgtttatttatttggtttgctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatttctaatcattgctatcttgtcttgctctgcaatttgttttattatacagGGCACATACAGCACCCAGATATTCTCACTGGCAGTTCTTTTGTCTAGCATGTTCATTTATAACCAG
     ttctaat  putative branch site (score: 2)
                                      tttgtttt  putative PPT
                                    aatttgttttattata  TA-rich tract