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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgcaaagggaaaggggtaaaatgattgattcaagattcaattggaagatacggtttttgatttcgatattagggttaattttatagtttgtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCAGCGCATGCCAATCCAAAGGGGAATAAGAGGTCTGAAGTTTTTATTGATA

Basic information

species Vitis vinifera
transcript Vv06s0004g07050.t01
intron # 2
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|77584926|gb|DV221546.1|DV221546
EST:     CGGATGGGGCTAAAGTTATGCTGATGGCTTCTCAGGGCTTGCATCAAGGG                         GGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCA
genomic: CGGATGGGGCTAAAGTTATGCTGATGGCTTCTCAGGGCTTGCATCAAGGGgtatcttcat ... gtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCA
EST: gi|30322614|gb|CD005876.1|CD005876
EST:     CGGATGGGGCTAAGGTTATGCTGATGGCTTCTCAGGGCTTACATCAAGGG                         GGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAACA
genomic: CGGATGGGGCTAAAGTTATGCTGATGGCTTCTCAGGGCTTGCATCAAGGGgtatcttcat ... gtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCA
EST: gi|37189688|gb|CF609037.1|CF609037
EST:     CGGATGGGGCTAAGGTTATGCTGATGGCTTCTCAGGGCTTACACCAAGGG                         GGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAACA
genomic: CGGATGGGGCTAAAGTTATGCTGATGGCTTCTCAGGGCTTGCATCAAGGGgtatcttcat ... gtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCA
EST: gi|30326528|gb|CD009790.1|CD009790
EST:     CGGATGGGGCTAAGGTTATGCTGATGGCTTCTCAGGGCTTACATCAAGGG                         GGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAACA
genomic: CGGATGGGGCTAAAGTTATGCTGATGGCTTCTCAGGGCTTGCATCAAGGGgtatcttcat ... gtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCA
EST: gi|30325613|gb|CD008875.1|CD008875
EST:     CGGATGGGGCTAAGGTTATGCTGATGGCTTCTCAGGGCTTACATCAAGGG                         GGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAACA
genomic: CGGATGGGGCTAAAGTTATGCTGATGGCTTCTCAGGGCTTGCATCAAGGGgtatcttcat ... gtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagatacggtttttgatttcgatattagggttaattttatagtttgtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCAGCGCATGCCAATCCAAAGGGGAATAAGAGGTCTGAAGTTTTTATTGATA
                            ggttaat  putative branch site (score: 4)
                                          tttgttt  putative PPT
                              ttaattttatagtttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgcaaagggaaaggggtaaaatgattgattcaagattcaattggaagatacggtttttgatttcgatattagggttaattttatagtttgtttgaacagGGCGGTCCAATCTTGAAGGAAGCTCCAACCCGTCCCATTTTGAGGGAAGCAGCGCATGCCAATCCAAAGGGGAATAAGAGGTCTGAAGTTTTTATTGATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - agggaaa
- - - - - - - -ggtaaaa