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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttagctaagcctagatttattgtttgatggaagtgtttctttattaatctagttctcgtcataacaaacttaaattattgaattttgttgtatttatagTAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG

Basic information

species Glycine max
transcript GLYMA01G42140.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G42140.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g18030.3 (Oryza sativa), 3'ss of exon 14
-ttta-gctaagcctagatttattgtttgatggaagtgtt-tctttattaatctagttctcgtcataaca-aacttaaattattgaattttgttgtatttat-agTAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG
 || | | ||  |  |||||| || | || || |    || | | | || ||    | ||  || |     ||  |||||  |||     |||| ||||| | || | | |  | ||  | || || |  ||  | ||||  || |||||||| ||||| ||||||||||| |||||||| |||||  | || ||||| |||
gttaatggtattcaaagatttgttttatgttgaattaattatttctgttgataggatccttttctttttgtaatgtaaatgcttg-----tgttatatttgtcagAAATGGTGGAGATTTATCAACCAAAGAGTTGCAAAAAATGGTTCAAGCTCTTCCGCAGTACAGTGATCAAATTGACAAGCTTGCGCTTCATGTTGAG

upper sequence: GLYMA01G42140.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g25580.2 (Oryza sativa), 3'ss of exon 8
-tttagctaagcctagatttattgtttgatggaagtgtttctttattaatctagttctcgtcataacaaactta-aattattgaattttgttgtatttat-agTAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG
 ||||  |   | |  || |   |||  |||      |||  ||  ||||   ||||| | | ||  |   | |   | ||||  |  ||||  | |||  || | | |  | || || || |  || ||  | ||||  || |||||||| |||||||||||||| || |||||||| ||||| || || ||||| |||
atttatttggacatgtatgttgagttgcatgagtccattttgtttgtaat---gttcttgacttattattttaatggtcattgcttcatgtttaaattaccagAACTGGGGGAGAGATATCCAATAGAGATTTGCAAAAAATGGTTCAAGCTCTTCCACAGTACAGCGATCAAATTGAGAAGCTTTCTCTTCATGTTGAG

upper sequence: GLYMA01G42140.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G052880_T01 (Zea mays), 3'ss of exon 12
tttagctaagcctagatttattgtttgatggaagtgtttct---ttattaatctagttctcgtcataacaaacttaaattattgaattttgttgtatttatagTAGTAGCAGT---GAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG
   |   |   | | |     | |||| | |   ||||  |   || ||  |  | |  |  |  |   ||     | | |||| ||||   | | |||  |  || | |  |   ||| | || ||||| ||  ||||||  || ||||| || ||||||||||||||||| |||||||||||||| ||||| ||||| |||
---actgacttccaaacacgat-tttgttagctatgttcttaacttcttgtttcaatgttgat--ttgtaattaggattgattgcatttccctttcttttcatcagAACCGATGGAGAATTATCGACAAGAGATTTACAAAAAATGGTTCAGGCTCTTCCACAGTACAGTGATCAAATTGATAAGCTTTCCCTGCATGTTGAG

upper sequence: GLYMA01G42140.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G12360.1 (Arabidopsis thaliana), 3'ss of exon 12
tttagctaagcctagatttat-tgtttgatggaagt-gtttctttattaatctagttctcgtcataacaaacttaaatt-attgaattttgttgtatttatagTAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG
 |||  | |  |||  || || | | || |  |  |  |||  |||   |  ||| |||  ||         | || ||  ||  | | | ||   ||  |||   | |   |||  | |||||||| ||  | || |  || ||||||||| | ||||||||||||||||||||||| |||||||| ||||| ||||||
cttacattactctacgttgatctatgtggtatactttatttggttagagaagtaggtcttctctccttttgatcaattttgtttgactctttt---ttcttagAGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAG

upper sequence: GLYMA01G42140.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
------tttagctaagcctagat----ttattgtttgatggaagtgtttctttattaatctagttctcgtcataacaaacttaaattattgaattttgttgtatttatagTAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG
       || |  |   || | |    ||  |  ||||||  ||||| |    |  | |  | | |  |   |   || ||  || |||| |  | |||| | |    ||  || |  ||||| |||||||||||||| | ||||  || ||||||||  | ||||| || ||||| |||||||| ||||| ||||||||||| |||
atgtatctttgtgatatctggttaatctttctacttgatgccagtgtattcagaccagt--aatccaggatgtgttaacct--aaatattta--tctgttatgt----agAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatctagttctcgtcataacaaacttaaattattgaattttgttgtatttatagTAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG
              tcataac  putative branch site (score: 2)
                ataacaaacttaaatt  TA-rich tract