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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgactcaccaaatgtgttttattcttactggttttcttatttaacccaaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG

Basic information

species Glycine max
transcript GLYMA11G35460.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 17
gtaatgactcaccaaatgtgttttattcttactggttttcttatttaacccaaaggccttctcttttattgattacattat-ttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
            ||      |||| || ||  |||||| ||| |||    |   | |  ||| ||| ||| |   |||||| || || |||||||||||||||| || |||||||| || ||||| || || ||||| ||||| ||||||||||||
----------gtcagtacctttttgttgtt-ttggtttacttttttttttctttgcctgtctgtttaattaa---cattatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 17
gtaatgactcaccaaatgtgttttattcttactggttttcttatttaacccaaaggccttctcttttattgattacattat-ttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
            ||      |||| || ||  |||||| ||| |||   |    | |  ||| ||| ||| |   |||||| || || |||||||||||||||| || |||||||| || ||||| || || ||||| ||||| ||||||||||||
----------gtcagtacctttttgttgtt-ttggtttactttttttttcttt-gcctgtctgtttaattaa---cattatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 15
gtaatgactcaccaaatgtgttttattcttactggttttcttatttaacccaaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
             |  | ||  || || |  ||| | |  |   || |  |        | | ||  |   ||  | |  ||| || ||||||||||  |||||||||| ||||| || ||||| ||||||||||| ||||| |||||||| |||
------gtcggtaacctttgcattgttttggctgatctcttctctttaatc------tctgtgttaaaccaatatcgtattttctgatgcagCATTATTCAGAGTTGCCTGATATCAAGCGTGTCATTGTAAATACTCATGCCATTGAGCCCCAG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 5
-------gtaatgactcaccaaat--gtgttttattcttactggttttcttatttaacccaaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
        |     | | |||  |  ||   ||    ||  ||    |  ||| |  | |   |   | || ||| | | |    |   ||| |  ||||||||||| |||||||||| ||||| || ||||  ||||||||||| ||||  ||||| ||||||
gttgtacttgcgagccctccaggtcagtacctttgcattggtgcagctgatatctc-cgcttcgtattcctgtttaactaaccttacattttgtaatgcagCATTACTCAGAGTTGCCTGATATCAAGCGTGCCATTGTAAATACCCATGTCATTGAACCACAG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G352837_T01 (Zea mays), 3'ss of exon 4
-------gtaatgactcaccaaatgtgttttattcttactggtttt-cttatttaacc-caaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
        |     | | |||  |  ||    |||  | ||||    || || |  || |   |   | || ||| | | |    |   ||| |  ||||||||||| |||||||||| ||||| || ||||  ||||||||||| ||||  ||||| ||||||
gttgtacttgcgagccctccaggtcagtacc-ttcgcattggtgcagctgatatctccgcttcgtattcctgtttaactaaccttacattttgtaatgcagCATTACTCAGAGTTGCCTGATATCAAGCGTGCCATTGTAAATACCCATGTCATTGAACCACAG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
gtaatgactcaccaaatgtgttttattcttactggttttcttatttaacccaaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
||  |  ||||  |  | |  |||| | ||  |||  |  |   |  |         |  ||||    ||  || | || |  || |||||||||||| ||||||| || ||||| |||||||||||||| || |||||||| ||||||||||||
gtttttgctca--atgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaac-ttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 17
gtaatgactcaccaaatgtgtttta---ttcttactggttttcttatttaacccaaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
        |    | |||| |||||   || |||| ||     |   || | |       |  ||      ||  || | || |  || |||||||||||| ||||||| || ||||||||||||||||||||||| |||||||| || |||||||||
-------gttggtacatgttttttaccatttttaccggccaaatagatttatcatcttctcaccttccaacttcttttccttttgatttgtgcagCATTACTCAGAGTTACCTGATATAAAACGTGTAATTGTAAACACACATGCTATCGAGCCACAG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
---gtaatgactcaccaaatgtgttttattct---tactggttttcttatt-taacccaaaggccttctcttttattgattaca----ttatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
     | ||  ||    |||   ||||||| |   |  |   ||| ||||| | ||   ||     |      | ||| ||| |    |||| ||| ||||||||||| || |||||||||||||||||||| || ||||| ||||||||||||||||||||||||
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttatttaacccaaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG
                             tattgat  putative branch site (score: 3)
                                        ttattttt  putative PPT
                     ttctcttttattgatt  TA-rich tract