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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggtttgcttagcttgtttacttcctcctggctttatgcttcaatcctggcttcaattttgatcttgatatttatgagtttcattcttttcatgcaaaacagATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAAGAAATGGGCTATTCATAAACTCATGTTTTGCTCATTGTCAGACAGAGAG

Basic information

species Vitis vinifera
transcript Vv05s0020g01110.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g01110.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G160569_T03 (Zea mays), 3'ss of exon 6
gtggtttgcttagcttgtttacttcctcctggctttatgcttcaatcctggcttcaattttgatcttgatatttatgagtttcattcttttcatgcaaaacagATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAAGAAATGGGCTATTCATAAACTCATGTTTTGCTCATTGTCAGACAGAGAG
          |   |  || | | |    | | || | | |  |||  ||   |||| |   |  || |      |     | ||  | |       |  |||  ||||| || || |||||  |||| || || || ||||| |  || |    |||||| || ||||| |||||||||||||||||||| ||||  |||||
---------gtgtttcattgattcctcagttgtttcaggttgtaat--tga--tcaact---aaattaaggcaagttcagctgatcttctgtgcatgatgcagGGTTCAGGAACCAGATGCTTGATGCCGTGAGGGGTTTCTCTGCATCAAGGCAAAATGGTCTGTTCATCAACTCATGTTTTGCTCATTGCCAGAGCGAGAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110378300|gb|EC943424.1|EC943424
EST:     CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAG                         ATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA
genomic: CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAGgtggtttgct ... tgcaaaacagATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA
EST: gi|110415092|gb|EC980966.1|EC980966
EST:     CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAG                         ATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA
genomic: CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAGgtggtttgct ... tgcaaaacagATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA
EST: gi|110380237|gb|EC945485.1|EC945485
EST:     CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAG                         ATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA
genomic: CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAGgtggtttgct ... tgcaaaacagATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA
EST: gi|110404255|gb|EC969030.1|EC969030
EST:     CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAG                         ATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA
genomic: CAGATTAAATTATGCATATTGCTCTTCATCACAAATTCAAGTTCTCCAAGgtggtttgct ... tgcaaaacagATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcttcaattttgatcttgatatttatgagtttcattcttttcatgcaaaacagATTTCAGAAAACAAATGCTAAATGCTGTAAGTGGCTTCTCAGGGTCCAAAAGAAATGGGCTATTCATAAACTCATGTTTTGCTCATTGTCAGACAGAGAG
               tcttgat  putative branch site (score: 4)
                               tttcattcttttcat  putative PPT
       aattttgatcttgata  TA-rich tract