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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaagatgtatgaaaagaaaagaggagacaccaaaaggaatttcaccttgcagtaaatacatatttcaattaatgtggtttttttttgtcccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGAAAGTTCTGAGAATCCATGCTTGTTGGGTGGTTTTCATG

Basic information

species Vitis vinifera
transcript Vv05s0094g01630.t01
intron # 5
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|110361410|gb|EC924878.1|EC924878
EST:     GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAG                         TTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
genomic: GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAGgtttctctca ... ccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
EST: gi|161713812|gb|FC063447.1|FC063447
EST:     GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAG                         TTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
genomic: GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAGgtttctctca ... ccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
EST: gi|110372081|gb|EC936226.1|EC936226
EST:     GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAG                         TTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
genomic: GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAGgtttctctca ... ccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
EST: gi|71875371|gb|DT024426.1|DT024426
EST:     GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAG                         TTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
genomic: GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAGgtttctctca ... ccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGA
EST: gi|71869640|gb|DT018695.1|DT018695
EST:     GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAG                         TTATTTGCACTATGGTCTATTAGCAGCTCGAGC
genomic: GTTAAGGAAATGTACCTCAAAGGAACAAAATACTTCCTCTATGTTCACAGgtttctctca ... ccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgcagtaaatacatatttcaattaatgtggtttttttttgtcccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGAAAGTTCTGAGAATCCATGCTTGTTGGGTGGTTTTCATG
                      aattaat  putative branch site (score: 3)
                                 tttttttttgtccctt  putative PPT
        taaatacatatttcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaagatgtatgaaaagaaaagaggagacaccaaaaggaatttcaccttgcagtaaatacatatttcaattaatgtggtttttttttgtcccttgtacagTTATTTGCACTATGGTCTATTAGCAGCTCGAGCAGAGATTCTTAAGGTTGAAAGTTCTGAGAATCCATGCTTGTTGGGTGGTTTTCATG

aaaagat
- - - - - - - aagaaaa
- - - - - - - - - - - - - -acaccaa
- - - - - - - - - - - - - - - - - - - - - - -ccttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaataca