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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaagattggacaaaggattataacatctgaacctcgctgaagttaccatagataaatggtccccttctatcagttcaaacagagattaccttctgttttttttctgagagttaacagattttatggagtgcaataggggcaagccacaacctccttttgattagACAAAGCCTGCTCTTCCAGCTCTTGGGCGTCTTATTCACTCGAATGATGAAGATGTGCTAACTGATGCATGTTGGGCATTGTCTTACCTTTCTGATGGTA

Basic information

species Vitis vinifera
transcript Vv00s0183g00040.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0183g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 5
gttgaagattggacaaaggattataacatctgaacctcgctgaagttaccatagataaatggtccccttctatcagttcaaacagagattaccttctgttttttttctgagagttaacagattttatggagtgcaataggggcaagccacaacctccttttgattagACAAAGCCTGCTCTTCCAGCTCTTGGGCGTCTTATTCACTCGAATGATGAAGATGTGCTAACTGATGCATGTTGGGCATTGTCTTACCTTTCTGATGGTA
                                                               |        |  ||| |      | ||   | ||| ||| ||       | ||     ||||||      || |     ||    ||    |  ||||  | ||   || ||||| ||||| |||||||  |||||||| || ||||| |||||||| ||  | |||||||||||||||||| |||| || |||||||||||||
---------------------------------------------------------------cattggtcttttgtttatgtcctgctt--ttactgatttattataagctgctattgtgttttattt--cacagttcatacattatactttgtttttttcttcagGTTAAACCTGCACTTCCTGCTCTTGCCCGTCTTATCCATTCGAACGATGAAGAAGTTTTGACTGATGCATGTTGGGCACTGTCATATCTTTCTGATGGTA

upper sequence: Vv00s0183g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G38320.1 (Glycine max), 3'ss of exon 5
gttgaagattggacaaaggattataacatctgaacctcgctgaagttaccatagataaatggtccccttctatcagttcaaacagagattaccttctgttttttttctgagagttaacagattttatggagtgcaataggggcaagccacaacctccttttgatt-agACAAAGCCTGCTCTTCCAGCTCTTGGGCGTCTTATTCACTCGAATGATGAAGATGTGCTAACTGATGCATGTTGGGCATTGTCTTACCTTTCTGATGGTA
                                                                    | | |    |   |       | | ||   |  ||  | | ||     |   ||||| |      || |     ||    ||    |  ||||  || ||   || ||||| ||||| |||||||  |||||||| || || || |||||||| ||  | |||||||||||||||||| |||| || ||||||||||| |
-------------------------------------------------------------------atttgttttcttgtatgtgtcctgcttttactgattgatttaagctgctatt-attttctatttcacagttcatacattatactgtttttttttccttcagGTTAAACCTGCACTTCCTGCTCTTGCCCGTCTTATCCATTCAAACGATGAAGAAGTATTGACTGATGCATGTTGGGCACTGTCATATCTTTCTGATGGCA

upper sequence: Vv00s0183g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 6
gttgaagattggacaaaggattataacatctgaacctcgctgaagttaccatagataaatggtccccttctatcagttcaaacagagattaccttctgttttttttctgagagttaacagattt-tatggagtgcaataggggcaagccacaacctccttttgattagACAAAGCCTGCTCTTCCAGCTCTTGGGCGTCTTATTCACTCGAATGATGAAGATGTGCTAACTGATGCATGTTGGGCATTGTCTTACCTTTCTGATGGTA
                                                                   | ||   |  | || || |    |  |  | ||     | | ||| ||    | | | | | || ||      |    |     | |||  ||||    ||   || ||||| ||||| |||||||   ||||||| || || ||||||||||| || || |||||||| ||||||||| | || || |||||||||||||
-----------------------------------------------------------------tgtgctgatatgtgaagcaaatgcaagttgtttttcccagttt-agatttgctggctctgttttgactgaggattgattgatttttatccttttttta--cagGTTAAACCTGCACTTCCTGCTCTTGCCAGTCTTATCCAGTCAAATGATGAAGAAGTCCTGACTGATGCTTGTTGGGCACTTTCATATCTTTCTGATGGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaacagattttatggagtgcaataggggcaagccacaacctccttttgattagACAAAGCCTGCTCTTCCAGCTCTTGGGCGTCTTATTCACTCGAATGATGAAGATGTGCTAACTGATGCATGTTGGGCATTGTCTTACCTTTCTGATGGTA
 agttaac  putative branch site (score: 3)
                                        cctcctttt  putative PPT
      agattttat  TA-rich tract