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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGTTATTGCATAGATGTAACATTGACATCAAAGGAAAGCAGGCTGTTGTGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctccaagttttttgtgtttttgtttccgtttttatttggcccccctccccccccacccttttttttttctgttgctgctatatgcccttttttccttattaacattgaacctctgtatgttttaatttcggtag

Basic information

species Vitis vinifera
transcript Vv15s0046g03400.t01
intron # 4
splice site 5'
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|71866279|gb|DT015334.1|DT015334
EST:     TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTA                         AGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
genomic: TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctcc ... atttcggtagAGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
EST: gi|30299501|gb|CB976295.1|CB976295
EST:     TGATTGGCCGAAGGANTATTGTTGGGATGCCAGCTGCTCTATTACTGCTA                         AGAGAAGATGCTACT
genomic: TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctcc ... atttcggtagAGAGAAGATGCTACT
EST: gi|110375876|gb|EC940899.1|EC940899
EST:     GCTGCTCTATTACTGCTA                         AGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
genomic: GCTGCTCTATTACTGCTAgtaagtctcc ... atttcggtagAGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
EST: gi|110384578|gb|EC949025.1|EC949025
EST:     TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTA                         AGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
genomic: TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctcc ... atttcggtagAGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
EST: gi|7593752|gb|AW708003.1|AW708003
EST:     TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTA                         AGAGAAGATGCTACTG
genomic: TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctcc ... atttcggtagAGAGAAGATGCTACTG
EST: gi|110416496|gb|EC982482.1|EC982482
EST:     TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTA                         AGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
genomic: TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctcc ... atttcggtagAGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
EST: gi|352768044|gb|FQ467443.1|FQ467443
EST:     TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTA                         AGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG
genomic: TGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctcc ... atttcggtagAGAGAAGATGCTACTGTGAGTATAGTCCATTCCAGAACCAAGAACCCCGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGTTATTGCATAGATGTAACATTGACATCAAAGGAAAGCAGGCTGTTGTGATTGGCCGAAGCAATATTGTTGGGATGCCAGCTGCTCTATTACTGCTAgtaagtctccaagttttttgtgtttttgtttccgtttttatttggcccccctccccccccacccttttttttttctgttgctgctatatgcccttttttccttattaacattgaacctctgtatgttttaatttcggtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT