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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggaagcaaattagtttgtaagattacaatatttgacgtcaattaacataaatcattaatgtcaaggtaaacatcttacataagaatatatatattttggaacatgtcatgtttggatttgcagACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTTGTTTTCCAA

Basic information

species Vitis vinifera
transcript Vv12s0035g01060.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G138676_T02 (Zea mays), 3'ss of exon 3
gtaggaagcaaattagtttgtaagattacaatatttgacgtcaattaacataaatcattaatgtcaaggtaaacatcttacataagaatatatatattttggaacatgtcatgtttggatttgcagACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTTGTTTTCCAA
                                  | |  || | || || |  ||  ||  | |  |  |||   | |      | ||   |   |      |  |||  ||||   |     ||| |||| |  ||||| || ||||||||||||||||||||||||||||| ||||| |  || 
---------------------------------gtgggggtaattttactttgattcttcgtat--atataactgtttggaggtaaaaaccacccagc--aaataatgatatgtgctgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTTGTGTATCAG
















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|156736132|gb|EV240253.1|EV240253
EST:     GTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAG                         ACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTT
genomic: GTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAGgtaggaagca ... ggatttgcagACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTT
EST: gi|161706124|gb|FC057171.1|FC057171
EST:     GTCATGTAATAAGAACAACTTCTGGTGGTCGAAATGGTCAATCTAAGCAG                         ACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTT
genomic: GTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAGgtaggaagca ... ggatttgcagACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatcttacataagaatatatatattttggaacatgtcatgtttggatttgcagACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTTGTTTTCCAA
   atcttac  putative branch site (score: 3)
      ttacataagaatatat  TA-rich tract