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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcgaatcgcaaattcctattctgtatcgattagggttagatacttagatctgcattgtctcttctatttatatttttttaattaatttttgtttaactatacgtatttattgatttatgtttttggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTTCTCTGCCAAAAG

Basic information

species Vitis vinifera
transcript Vv17s0000g04350.t01
intron # 1
splice site 3'
intron type U2

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|32269892|gb|CD719051.1|CD719051
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|32265470|gb|CD716323.1|CD716323
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|110364297|gb|EC923808.1|EC923808
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|110717704|gb|EE093793.1|EE093793
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|32245164|gb|CD710983.1|CD710983
EST:     GTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: GTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|32269476|gb|CD718635.1|CD718635
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|351049478|gb|FQ450079.1|FQ450079
EST:     TTGACTCGTCATCAATCGTTCTCCTCTGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGACGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|27755425|gb|CB036180.1|CB036180
EST:     TTGACTCGTCATCAATCGTTCTCCTCTGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|32268792|gb|CD717951.1|CD717951
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|110376750|gb|EC941823.1|EC941823
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|110386363|gb|EC950953.1|EC950953
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|30126174|gb|CB911513.1|CB911513
EST:     TTGACTCGTCATCAATCGTTCTCCTCTGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|32249347|gb|CD715166.1|CD715166
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|349821965|gb|FQ408294.1|FQ408294
EST:     TTGACTCGTCATCAATCGTTCTCCTCTGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGGTATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|110421632|gb|EC987932.1|EC987932
EST:     TTGACTCGTCATCAATCGTTCTCCTCTGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|71866414|gb|DT015469.1|DT015469
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|71873157|gb|DT022212.1|DT022212
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|71873951|gb|DT023006.1|DT023006
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|351030130|gb|FQ430872.1|FQ430872
EST:     TTGACTCGTCATCAATCGTTCTCCTCTGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|71871943|gb|DT020998.1|DT020998
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
EST: gi|18458461|gb|BM436739.1|BM436739
EST:     TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCG                         GTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT
genomic: TTGACTCGTCATCAATCGTTCTCCTCCGTTGATTTCAACACGGTGATTCGgtgagtcgaa ... tggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattaatttttgtttaactatacgtatttattgatttatgtttttggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTTCTCTGCCAAAAG
                             tattgat  putative branch site (score: 3)
                                       tgttttt  putative PPT
     aatttttgtttaacta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtcgaatcgcaaattcctattctgtatcgattagggttagatacttagatctgcattgtctcttctatttatatttttttaattaatttttgtttaactatacgtatttattgatttatgtttttggtttcaagGTGTTAGAATGGAACCTATGGATATAGTCGGGAAGTCCAAAGAGGATGCTTCTCTGCCAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG