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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtataactcccgtacctgacattgatgctttattaatgctttgtaattaactatatgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG

Basic information

species Glycine max
transcript GLYMA16G18030.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g07070.1 (Oryza sativa), 3'ss of exon 10
-gtaagtataactcccgtacctga----cattgatgctttattaat-gctttgtaattaactatatgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG
   |||      ||   ||    |     ||| |  || | ||    | |   | ||||   |   |     ||||||||||||||||| || ||||| |||||  ||||||||||||| || ||||||||||| || ||||| ||| |||| ||||| || || |||
gcaaagctctgttcttctattgtaggattattaaaactattttgccagttgccttattagacactagcattttcagGTCCAACTCATGTTTTAGTTGTTCGTGGTCTGGATGAAAATGCTGACGAGGAAATGCTTCGATATGAATTTGCCAAGCATGCACCTATAAAG

upper sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G173777_T01 (Zea mays), 3'ss of exon 9
gtaagtataa--ctcccgta-------cctgacattg-atgctttattaatgctttgtaattaactatatgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG
| |||| |    || || ||        |||  ||    || | ||||         || |||  | |         |||||||||||||||| || ||||| ||||| |||||||||||||| |||||||||||||| || || || ||| | || || || || || |||
gcaagttttgtgcttccatagtttcattctggaatcatgtgatatattgtgctgccttatttagttgtggtcatttgcagGTCCAACTCATGTTTTAGTTGTTCGTGGCTTGGATGAAAATGCTGATGAGGAAATGCTTCGGTACGAATTTGCTAAGCACGCACCAATAAAG

upper sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G151614_T03 (Zea mays), 3'ss of exon 10
gtaagtataactcccgtacctgacattgatgctttat-taatgctttg---taattaactatatgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG
| ||||  |  |    | |  ||  |   ||   ||| || ||   ||   || |||  |           |||||||||||||||| || ||||| ||||| || ||||||||||| |||||||||||||| || || || ||| | || || || ||  | |||
gcaagttcagtttt-attctggatttatctgaactatgtattgtgctgccttatttagttgctgtcatttgcagGTCCAACTCATGTTTTAGTTGTTCGTGGCTTAGATGAAAATGCTGATGAGGAAATGCTTCGGTACGAATTTGCTAAGCACGCACCATTAAAG

upper sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G54230.2 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------------------------------------------------gtaag--tataactcccgtacctgacattgatgctttattaatgctttgtaa---ttaactatatgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG
                                                                    ||||   |||      |||| |  | |  ||||  |||  |       ||     |   ||| |       ||||||||||||||||  ||||||| ||||| ||||||||| |||| |||||||||||||| || ||||| ||||||||||||||||| || |||
gttctgatcagcatttttatttaagatgttttaaatttctttcttgagtcagaaacagtcgcaactgttaaggccatagtctttgtacttttc-tacatgccatatatacctaagatacattctgcttattttcttttccagGTCCAACTCATGTCCTGGTTGTACGTGGGTTGGATGAAGATGCTGATGAGGAAATGCTTCGGTATGAATTTTCCAAACATGCTCCTATCAAG

upper sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 8
-----gtaagtataactcccgtacctgacattgatgctttatta-atgctttgtaattaactat----atgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG
        | |  |   |   ||  || |||  ||     |||| || | ||||||||  |||     || || |||||||||| |  ||||| |||||||| || || |||||||||||||| |||||||||||||| || ||||| ||||| ||||||||||| || |||
gttggaacactccattgcttttaattggcatgcattaagcattatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacctgacattgatgctttattaatgctttgtaattaactatatgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG
                                 aattaac  putative branch site (score: 2)
                 tttattaatgctttgt  TA-rich tract