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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctagtatagtttgttgtatctttgaaatttatcaaattctgtaccctgtgaatattcaataatgcatgctcttatggcatttgttgatggctgaaaacagGCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCCAGAAATGCAGAGATCAAACCTTGTTTCCTGTGTGATTCAG

Basic information

species Vitis vinifera
transcript Vv10s0003g00810.t01
intron # 14
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|18458301|gb|BM436579.1|BM436579
EST:     AGACAAAGGGCTGGTAGAGCTGGAAGAGTGCGACCAGNGAAGTGTTACAG                         GCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGC
genomic: AGACAAAGGGCTGGTAGAGCTGGAAGAGTGCGACCAGGGAAGTGTTACAGgtgtctaact ... ctgaaaacagGCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGC
EST: gi|30320990|gb|CD004252.1|CD004252
EST:     AGACAAAGGGCTGGTAGAGCTGGAAGAGTGCGACCAGGGAAGTGTTACAG                         GCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCC
genomic: AGACAAAGGGCTGGTAGAGCTGGAAGAGTGCGACCAGGGAAGTGTTACAGgtgtctaact ... ctgaaaacagGCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCC
EST: gi|110369686|gb|EC933851.1|EC933851
EST:     GAAGAGTGCGACCAGGGAAGTGTTACAG                         GCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCC
genomic: GAAGAGTGCGACCAGGGAAGTGTTACAGgtgtctaact ... ctgaaaacagGCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCC
EST: gi|33401544|gb|CF207171.1|CF207171
EST:     AGACAAAGGGCTGGTAGAGCTGGAAGAGTGCGACCAGGGAAGTGTTACAG                         GCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATACTATTCC
genomic: AGACAAAGGGCTGGTAGAGCTGGAAGAGTGCGACCAGGGAAGTGTTACAGgtgtctaact ... ctgaaaacagGCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtgaatattcaataatgcatgctcttatggcatttgttgatggctgaaaacagGCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCCAGAAATGCAGAGATCAAACCTTGTTTCCTGTGTGATTCAG
                                    tgttgat  putative branch site (score: 4)
     aatattcaataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctagtatagtttgttgtatctttgaaatttatcaaattctgtaccctgtgaatattcaataatgcatgctcttatggcatttgttgatggctgaaaacagGCTATACACAGAAGAGTATTTTGTCAATGAGATGTCAGCTCATGCTATTCCAGAAATGCAGAGATCAAACCTTGTTTCCTGTGTGATTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - atcaaat
- - - - - - - - - - - - - - - - - - - - - accctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgatgg