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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctgttgttcacactaaaatttctttttcttttcttaagtctggtcacatgaatttaattcttggtacattatttttacactttaaaactaacatcagtcttataattgaatatgcataaatcttgttctcagATATACAAAGTTCCAGCAACTGATGTTGAAGCACTGAAATCCCCATTGATGGGACTGTTTGAAAAGCGCCGAGCTCGGAAGTTCTTCATTTATGTCCAAG

Basic information

species Vitis vinifera
transcript Vv03s0017g00490.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G07250.1 (Glycine max), 3'ss of exon 4
gtatgctgttgttcacactaaaatttctttttcttttcttaagtctggtcacatgaatttaattcttggtacattatttttacactttaaaactaacatcagtcttat-aattgaatatgcataaatcttgttctcagATATACAAAGTTCCAGCAACTGATGTTGAAGCACTGAAATCCCCATTGATGGGACTGTTTGAAAAGCGCCGAGCTCGGAAGTTCTTCATTTATGTCCAAG
          ||   ||  | | |  |  | |  ||| ||   | ||  ||||     |   || ||  ||    |   ||| | || | ||  ||| ||   | |||  |   |||||   ||    || || | |||| ||||||||||||||||| ||||||||||||||||| || ||||| |||||||||||||| |||||||| ||||| ||||||||||||||||||||||
----------gtaggcagcatattcaccatgttctttatttcttttgtacacaattgctactttttttatattgcaaacttaaatttcacaa--aacctcttgcatattgacataatatcttta---tttatttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATGGGACTGTTTGAGAAGCGCCGTGCTCGAAAGTTCTTCATTTATGTCCAAG

upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 4
gtatgctgt-tgttcacactaaaatttctttttcttttcttaagtctggtcacatgaatttaattcttggtacattatttttaca------ctttaaaactaacatcagtcttataattgaatat--------gcataaatcttgttctcagATATACAAAGTTCCAGCAACTGATGTTGAAGCACTGAAATCCCCATTGATGGGACTGTTTGAAAAGCGCCGAGCTCGGAAGTTCTTCATTTATGTCCAAG
||| || |  | ||||   |    ||| ||||  |||    |   ||| |    |   ||| ||  |    || | | ||| |||      |||  | | | |||  | |||||| |  ||||||          ||| || || || | |||| ||||||||||||||||| ||||||||||||||||| || ||||| ||||| |||||||| |||||||| ||||||||||||||||| ||||||||||
gtaggcagcatattcatcatgttctttattttcttttgtacacaactgctacttt---ttttatattgcaaacttaaatttcacaaaacctcttgcatattgacaaaaatcttatgacagaatatctttatttatatatatattttttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATGGGTCTGTTTGAGAAGCGCCGTGCTCGGAAGTTCTTCATCTATGTCCAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactttaaaactaacatcagtcttataattgaatatgcataaatcttgttctcagATATACAAAGTTCCAGCAACTGATGTTGAAGCACTGAAATCCCCATTGATGGGACTGTTTGAAAAGCGCCGAGCTCGGAAGTTCTTCATTTATGTCCAAG
        aactaac  putative branch site (score: 1)
                                           tcttgttctc  putative PPT
                      ttataattgaatatgc  TA-rich tract