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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gactcggttcttattttgtcacctgactggtccctaaatcattgatgctactgtgctcaaaactatgaaatccctaaaacaatccattactaccctgcagTTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAACAAGCTCAACAAATGACACCACAGTCGCTCCTGGCTGCACGCTCCTCCA

Basic information

species Vitis vinifera
transcript Vv14s0081g00200.t01
intron # 3
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|110400803|gb|EC967383.1|EC967383
EST:     TGGCAGCAATTGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAG                         TTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAA
genomic: TGGCTGCAATCGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAGgtacgtattt ... taccctgcagTTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAA
EST: gi|110733165|gb|EE109120.1|EE109120
EST:     TGGCTGCAATCGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAG                         TTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAACACCAA
genomic: TGGCTGCAATCGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAGgtacgtattt ... taccctgcagTTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAA
EST: gi|37187930|gb|CF607281.1|CF607281
EST:     TGGCTGCAATCGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAG                         TTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAA
genomic: TGGCTGCAATCGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAGgtacgtattt ... taccctgcagTTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAA
EST: gi|77581760|gb|DV219834.1|DV219834
EST:     TGGCTGCAATTGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAG                         TTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAACACCAA
genomic: TGGCTGCAATCGCTGATTCTCAACCCCAACCACCCACCATGCATGCTCAGgtacgtattt ... taccctgcagTTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctactgtgctcaaaactatgaaatccctaaaacaatccattactaccctgcagTTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAACAAGCTCAACAAATGACACCACAGTCGCTCCTGGCTGCACGCTCCTCCA
                          ccctaaa  putative branch site (score: 3)
                                            ctaccct  putative PPT
                             taaaacaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gactcggttcttattttgtcacctgactggtccctaaatcattgatgctactgtgctcaaaactatgaaatccctaaaacaatccattactaccctgcagTTCCCTCCTAGTGGCATTGTTCAGCCAGGAGCTCACTACATGCAGCACCAACAAGCTCAACAAATGACACCACAGTCGCTCCTGGCTGCACGCTCCTCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - -cacctga
- - - - - - - - - - - - - - - -ccctaaa
- - - - - - - - - - - - - - - - - - - - - - atgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattac