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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACATGGATTATGTATTTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggattacttggtgttggatctgtttttgatgattgttggcccctacaagaaggaaaaaaaaggaatttcctcatttggctgtcttttgtgatcag

Basic information

species Vitis vinifera
transcript Vv13s0019g04470.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04470.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA10G06580.1 (Glycine max), 5'ss of exon 10
GTACATGGATTATGTATTTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggattacttggtgttggatctgtttttgatgattgttggcccctacaagaaggaaaaaaaaggaatttcctcatttggctgtcttttgtgatcag
 || ||||||||||| ||||| |||||||| ||||||||||| ||| | || | ||| ||||||||||||   |||| ||       ||||||         | | ||||          ||       |     | |   |  ||    |||| | | ||| |||
ATATATGGATTATGTTTTTGGAAATGAAACTGAAGCAAGAACATTTTCTAAAGCTCAAGGCTGGGAGgtaatcattaattaaca---gatctgaaggcttgcagttttggtttaagttttaatttgtgtattttgactcttttctt--attgtcctat-tgaacag
















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|46919754|gb|CN549083.1|CN549083
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|110723004|gb|EE099818.1|EE099818
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|45771535|gb|CN007387.1|CN007387
EST:     TTGGGAATGAAACGGAAGCAAGAACCCTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|83274601|gb|DV938698.1|DV938698
EST:     AAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: AAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|22008497|gb|BQ793531.1|BQ793531
EST:     CCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: CCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|110406918|gb|EC972505.1|EC972505
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|32245916|gb|CD711735.1|CD711735
EST:     CTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: CTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|71874878|gb|DT023933.1|DT023933
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|77580852|gb|DV219346.1|DV219346
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|30329392|gb|CD012654.1|CD012654
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|32245456|gb|CD711275.1|CD711275
EST:     CTTTGCCAAGGTTCATGGCTGGGAG                         GCTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: CTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|46910988|gb|CN546363.1|CN546363
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|22015287|gb|BQ800321.1|BQ800321
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|27585920|gb|CB008615.1|CB008615
EST:     CTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: CTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|110425226|gb|EC991608.1|EC991608
EST:     TTGGGAATGAAACAGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|110381672|gb|EC935088.1|EC935088
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|71882532|gb|DT031587.1|DT031587
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|110425150|gb|EC991528.1|EC991528
EST:     TTGGGAATGAAACAGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
EST: gi|110382513|gb|EC946810.1|EC946810
EST:     TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAG                         ACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA
genomic: TTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggatta ... ttgtgatcagACTGATAATGTTGAGGAGATTGCAATAAAAATATCTCAATGGCCAAAAGCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACATGGATTATGTATTTGGGAATGAAACGGAAGCAAGAACCTTTGCCAAGGTTCATGGCTGGGAGgtagggattacttggtgttggatctgtttttgatgattgttggcccctacaagaaggaaaaaaaaggaatttcctcatttggctgtcttttgtgatcag

- - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - AAGAAC