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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taccctgcaatttatggaccttttcaattatctcactgagaactccaaacttttgattttgtcataaaagttaagccatcttgataattgctactatgcagaTACGGGGTATGCATACCCTGATACGTGATGCCAAGACAACAAAGCATGATTTTGTATTTTACTCTGATCGATTGATTCGATTGG

Basic information

species Glycine max
transcript GLYMA18G08180.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G08180.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 8
taccctgcaatttatggaccttttcaattatctcactgagaactccaaacttttgattttgtcataaaagttaagccatcttgataattgctactatgcagaTACGGGGTATGCATACCCTGATACGTGATGCCAAGACAACAAAGCATGATTTTGTATTTTACTCTGATCGATTGATTCGATTGG
      | |||| ||  | |  |    | ||||   |  ||    ||  || || | |     | || |   |    ||     | ||| ||  |  ||||||| | || ||||| ||||| ||||| ||| |  ||||||| || ||||||||||| || || ||||||||||||||| |  || 
------gtaattgatatatcaatc---tcatctacatacgagtaacattctcttaactaccaaacaagatccagaaaat-----tgatttctctt--gcagATAAGAGGGATGCACACCCTTATACGAGATTCTCAGACAACCAAACATGATTTTGTCTTCTATTCTGATCGATTGATTAGGCTG-

upper sequence: GLYMA18G08180.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------------------------------------------------taccctgcaatttatggaccttttcaattatc---tcac-------tgagaactccaaact---tttgattttgtcataaaagtt----aagccatct---tga-----taattgctactatgcagaTACGGGGTATGCATACCCTGATACGTGATGCCAAGACAACAAAGCATGATTTTGTATTTTACTCTGATCGATTGATTCGATTGG
                                                                        ||   | ||| ||      | ||  || | |    ||||       || | | || | | |   ||| ||||    ||  |||||    |   ||| |   |||     || ||| |   || |||||||||||||||||||| || |||||||||||  | |||||||||||||||||||| |||||  |||| || |||||||| ||| 
gtatatcagctcttcctatttgctattattatttactgtgggtgtgtgtgcctgtgtgtgtgcgtgtgtttttaaattccaaatttcatgtcattgtaaatgtaaggtcacatgatcttgtggattcgatattcagttttatttgcctattgaagttccaaatttcatatgattgaagctttatttgatttgatccagATACGGGGTATGCATACACTTATACGTGATGCTCAAACAACAAAGCATGATTTTGTCTTTTATGCTGACCGGTTGATTCGTTTG-
















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|10232146|gb|BE801034.1|BE801034
EST:     CCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGA                         TACGGGGTATGCATACCCTGATACGTGATGCCAAGACAACAAAGCATGATT
genomic: CCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGGtaccctgcaa ... actatgcagaTACGGGGTATGCATACCCTGATACGTGATGCCAAGACAACAAAGCATGATT
EST: gi|14125241|gb|BG789679.1|BG789679
EST:     CCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGA                         TACGGGGTGTGCATACCCTGATACGTCATGCCAAGACAACAAAGCATGATT
genomic: CCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGGtaccctgcaa ... actatgcagaTACGGGGTATGCATACCCTGATACGTGATGCCAAGACAACAAAGCATGATT
EST: gi|58019197|gb|CX705939.1|CX705939
EST:     TAATTTGTATGTCATTCAGTCAACTTTTCAGA                         TACGGGGTATGCATACCCTGATACGTGATGCCAAGAC-ACAAAAGCATGAT
genomic: TAATTTGTATGTCATTCAGTCAACTTTTCAGGtaccctgcaa ... actatgcagaTACGGGGTATGCATACCCTGATACGTGATGCCAAGACAAC-AAAGCATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttttgattttgtcataaaagttaagccatcttgataattgctactatgcagaTACGGGGTATGCATACCCTGATACGTGATGCCAAGACAACAAAGCATGATTTTGTATTTTACTCTGATCGATTGATTCGATTGG
                               tcttgat  putative branch site (score: 4)
        attttgtcataaaa  TA-rich tract