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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttttcatatcatgaatccttttcatagttttcaaaggaaaatgactatttaacaacttgaagctaaatatggttgctaatattattctgcccaattcagGTAAAAAGTTCTGGAACTTGTTTCATTTGCAGCCTATGCGTGATCAGAAG

Basic information

species Glycine max
transcript GLYMA12G07890.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G07890.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os12g01140.4 (Oryza sativa), 3'ss of exon 4
gttttcatatcatgaatcc-ttttcatagttttcaaaggaaaatgactatttaacaacttgaagctaaatatggttgctaatattattctgc--ccaattcagGTAAAAAGTTCTGGAACTTGTTTCATTTGCAGCCTATGCGTGATCAGAAG
  ||  || | | || |   |   |||   ||| | |  || ||    || |  |   |   ||  || |    || |    |||| |      |     ||||||||||||| |||||| | ||||| ||||| || ||||||||||| |||
--ttgtattttaagagttagtggacatcaattttataataagatagg-atatgtcttttcacagtaaagttaccttcccttcattacttcattacttggacagGTAAAAAGTTTTGGAACCTCTTTCACTTGCAACCAATGCGTGATCAAAAG

upper sequence: GLYMA12G07890.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G001457_T02 (Zea mays), 3'ss of exon 7
--gttttcatatc-atgaatccttttcatagttttcaaaggaaaatgactatt-taacaacttgaagctaaatatggttgctaatattattctgcccaattcagGTAAAAAGTTCTGGAACTTGTTTCATTTGCAGCCTATGCGTGATCAGAAG
    || | | |  ||  |  ||  | || ||    | |     ||  ||||  |||  | || ||   |||| |   |  |  |  | |    |   | | |||||| || ||||||||| | ||||| ||||||||||||||||||||||||
ctagttgcttgtagatagaggctactaat-gtgcagatatctttatttctatggtaatgagttaaactgaaattt--cttgtggttgtgtatcacttgagt-agGTAAGAAATTCTGGAACCTCTTTCACTTGCAGCCTATGCGTGATCAGAAG

upper sequence: GLYMA12G07890.2 (Glycine max), 3'ss of exon 9
lower sequence: AT3G45780.1 (Arabidopsis thaliana), 3'ss of exon 8
gttttcatatcatgaatccttttcatagttttcaaaggaaaatgactatttaacaacttgaagctaaatatggttgctaatattattctgcccaattcagGTAAAAAGTTCTGGAACTTGTTTCATTTGCAGCCTATGCGTGATCAGAAG
         |  |  ||  |||  ||| || | | |  ||  || | ||   |     | ||| |  | ||      | | |||||  |  |     |||| || |||||||||||| | || || ||||| ||||||||||||||||||
--------gtactcgattttttcgata-ttcttagattaatctgtcgatc--attgtataaagttttaaat------ttacattatattctctgtggcagGAAAGAAGTTCTGGAACATTTTCCACTTGCAACCTATGCGTGATCAGAAG

upper sequence: GLYMA12G07890.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0004g03700.t01 (Vitis vinifera), 3'ss of exon 8
gttttcatatcatgaatccttttcatagttttcaaaggaaaatgacta-tttaacaacttgaagctaaatatggttgctaatattattctgcccaattcagGTAAAAAGTTCTGGAACTTGTTTCATTTGCAGCCTATGCGTGATCAGAAG
|| ||  ||    ||       | |||   || | |||    |   || ||| |  |||   |  |  |||    |  |||   | ||     |  | |||| || |||||||||||| |||| ||| |||||||||||||||||||||||
gtgtttctacttggagaaaacataataacattaacagggttttctttaattttaatactgtcacttccataactattttaagtctgttgaaatcg-tccagGGAAGAAGTTCTGGAACCTGTTCCATCTGCAGCCTATGCGTGATCAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatttaacaacttgaagctaaatatggttgctaatattattctgcccaattcagGTAAAAAGTTCTGGAACTTGTTTCATTTGCAGCCTATGCGTGATCAGAAG
                             tgctaat  putative branch site (score: 2)
                                        ttctgccc  putative PPT
                            ttgctaatattatt  TA-rich tract