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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgactcaccaaatgtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG

Basic information

species Glycine max
transcript GLYMA18G02960.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 17
gtaatgactcaccaaatgtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactat-ttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
            ||      |||| || ||  |||||| ||| |||    |     |  ||| ||| | | |   || ||| || || |||||||||||||||| || |||||||| || ||||| || || ||||| ||||| ||||||||||||
----------gtcagtacctttttgttgtt-ttggtttacttttttttttctttgcctgtctgtttaattaa---cattatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 17
gtaatgactcaccaaatgtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactat-ttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
            ||      |||| || ||  |||||| ||| |||   |     ||||     |||| | |  ||| ||| || || |||||||||||||||| || |||||||| || ||||| || || ||||| ||||| ||||||||||||
----------gtcagtacctttttgttgtt-ttggtttactttttttttcttt--gcctgtctgtttaatta--acattatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 15
gtaatgactcaccaaatgtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
             |  | ||  || || |  ||| | |  |   || |      | |  | | ||  ||  ||  |    ||| || ||||||||||  |||||||||| ||||| || ||||| ||||||||||| ||||| |||||||| |||
------gtcggtaacctttgcattgttttggctgatctcttctcttta------atctctgtgttaaaccaatatcgtattttctgatgcagCATTATTCAGAGTTGCCTGATATCAAGCGTGTCATTGTAAATACTCATGCCATTGAGCCCCAG

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 5
-------gtaatgactcaccaaat--gtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
        |     | | |||  |  ||   ||   |||  ||    |  ||| |   |        | || ||| ||| |    ||  ||| |  ||||||||||| |||||||||| ||||| || ||||  ||||||||||| ||||  ||||| ||||||
gttgtacttgcgagccctccaggtcagtacctttgcattggtgcagctgatatctccgcttcgtat-tcctgtttaactaaccttacattttgtaatgcagCATTACTCAGAGTTGCCTGATATCAAGCGTGCCATTGTAAATACCCATGTCATTGAACCACAG

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G352837_T01 (Zea mays), 3'ss of exon 4
-------gtaatgactcaccaaat--gtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
        |     | | |||  |  ||   ||   |||  ||    |  ||| |   |        | || ||| ||| |    ||  ||| |  ||||||||||| |||||||||| ||||| || ||||  ||||||||||| ||||  ||||| ||||||
gttgtacttgcgagccctccaggtcagtaccttcgcattggtgcagctgatatctccgcttcgtat-tcctgtttaactaaccttacattttgtaatgcagCATTACTCAGAGTTGCCTGATATCAAGCGTGCCATTGTAAATACCCATGTCATTGAACCACAG

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
gtaatgactcaccaaatgtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
||  |  ||||  |  | |  |||| ||||  |||  |  |   |  |         |  ||||     |  || |  | |  || |||||||||||| ||||||| || ||||| |||||||| ||||| || |||||||| ||||||||||||
gtttttgctca--atgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaac-ttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 17
gtaatgactcaccaaatgtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactatttttg----gtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
        |    | |||| |||||  |||  |      |  | |  |   |  | | |      || |   ||    |  |||||    |||||||||||| ||||||| || |||||||||||||| |||||||| |||||||| || |||||||||
-------gttggtacatgttttttaccattttta-ccggccaaatagatttatcatcttctcaccttccaacttcttttccttttgatttgtgcagCATTACTCAGAGTTACCTGATATAAAACGTGTAATTGTAAACACACATGCTATCGAGCCACAG

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
---gtaatgactcaccaaatgtgttttattat---tactggttttcttatt-taacccaaaagccttctcttttactgattaca----ctatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
     | ||  ||    |||   ||||||| |   |  |   ||| ||||| | ||   |||    |      |  || ||| |     ||| ||| ||||||||||| || |||||||||||||||||||| || ||||| ||||||||||||||||||||||||
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttatttaacccaaaagccttctcttttactgattacactatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG
                             tactgat  putative branch site (score: 2)
                                        ctattttt  putative PPT
                                  attacactattttt  TA-rich tract