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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggagattctgtgtattgggcaataatactggatttacttcaaatcttaatggctatattgtttaaattttcagGTTGATCAAACTCCGCTGCCTCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCAATG

Basic information

species Glycine max
transcript GLYMA04G09480.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G09480.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os01g49940.2 (Oryza sativa), 3'ss of exon 22
---gtaaggagattctgtgtattgggcaataatactggatttacttcaaatcttaatggctatattgtttaaattttc----agGTTGATCAAACTCCGCTGCCTCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCAATG
    |||   || |     ||||    |   ||  |   ||||| |    |  |  | | |  | |||||  ||| |     |||||||  |    ||  | || || ||||||||||||||||||||||| ||| |||||||||| || ||  ||
gtactaacttgactgctgttattctttacctattattcttttacatattcttctctttgattaactgtttggattgttatgtagGTTGACAATGTACCAATTCCACTTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTG

upper sequence: GLYMA04G09480.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G466139_T01 (Zea mays), 3'ss of exon 19
gtaaggagatt-ctgtgtattgggcaataatactggatttacttcaaatcttaatggctatattgtttaaattttcagGTTGATCAAACTCCGCTGCCTCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCAATG
|||   | ||| | |    |   | | |  | |  |  ||  ||   |||||      ||   ||       || ||||||||   ||  ||  | ||||| ||||| ||||||||||||||||| ||  ||||||||||||||||  ||
gtacatacattaccgctgctattggagttttgcgtgtctttattttcatcttgcctaataagctgaactgtcttgcagGTTGACAGAATACCAATTCCTCTTCTTTTTATGAGAACAGTTATTCAAGCGCTTGATGCTTTTCCTGCTTTG

upper sequence: GLYMA04G09480.1 (Glycine max), 3'ss of exon 21
lower sequence: AT1G27595.1 (Arabidopsis thaliana), 3'ss of exon 15
gtaaggagattctgtgtattgggcaataatactggatttacttcaaatcttaatggctatattg-tttaaattttcagGTTGATCAAACTCCGCTGCCTCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCAATG
    | |  |    | |  |||  || ||      ||||| || | || || |   || |  |  |||    ||||||||||||| |||||| |||||| |||| |||||| |||| ||||| |||||||| |||||||||||  || | 
----gtatgtcaaatatcatggaaaagaacttcctatttagtt-agatattgagatctgtgatactttttggtttcagGTTGATCGAACTCCTCTGCCTTTACTCTTCATGCGAACGGTTATCCAGGCAATCGATGCTTTTCCAACACTA

upper sequence: GLYMA04G09480.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv18s0001g08140.t01 (Vitis vinifera), 3'ss of exon 17
gtaaggagattctgtgtattgggcaat-----aatactggatttac--ttcaaatcttaatggctatattgt-ttaaattttcagGTTGATCAAACTCCGCTGCCTCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCAATG
||| |   |   |||  ||| |  | |     | || |||| |||   || | |||||  | |   ||   | |  ||||||||||||||||| |||||  |||||||||| |||||||||||||| ||||||||||||||||||| |||| |  ||
gtatgtgaaagttgtccatttgcaattctgaaattattggacttaaaattaatatcttgcttgtagtaacctatccaattttcagGTTGATCATACTCCATTGCCTCTACTCTTCATGAGAACAGTAATTCAGGCAATTGATGCTTATCCTACCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaataatactggatttacttcaaatcttaatggctatattgtttaaattttcagGTTGATCAAACTCCGCTGCCTCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCAATG
                         tcttaat  putative branch site (score: 3)
                                                ttttc  putative PPT
                                   tatattgtttaaattt  TA-rich tract