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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcgacaaactggtgttctttgttaggaatgatgtgcatgctgttaattattgccatggaagtcgattgttctaaatcttctttcattgtattatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAGAATACTCTTTTTGGGGACATATTTAAGGTCATTCAAATTGACCCAGATG

Basic information

species Vitis vinifera
transcript Vv05s0094g00120.t01
intron # 1
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|349833213|gb|FQ416591.1|FQ416591
EST:     CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTG                         ATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
genomic: CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTGgttagtgctc ... attatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
EST: gi|110380589|gb|EC945864.1|EC945864
EST:     CACCCCGCTTCAATCCCTTTAGGGTTTTGGCATTTGAAGGTTTCGCAGTG                         ATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
genomic: CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTGgttagtgctc ... attatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
EST: gi|110413303|gb|EC979082.1|EC979082
EST:     CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTG                         ATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
genomic: CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTGgttagtgctc ... attatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
EST: gi|77582206|gb|DV220065.1|DV220065
EST:     CACCCCGCTTCAATCCCTTTAGGGTTTTGGCATTTGAAGGTTTCGCAGTG                         ATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
genomic: CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTGgttagtgctc ... attatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
EST: gi|110420055|gb|EC986316.1|EC986316
EST:     CACCCCTCTTCAATCCCTTTAGGGTTTTGGCATTTGTAGGTTTCGCAGTG                         ATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
genomic: CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTGgttagtgctc ... attatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
EST: gi|110400610|gb|EC967176.1|EC967176
EST:     CACCCCGCTTCAATCCCTTTAGGGTTTTGGCATTTGAAGGTTTCGCAGTG                         ATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
genomic: CACCCCTCTTCAATCCCTCTAGGGTTTTGGCATTTGAAGGTTTCGCAGTGgttagtgctc ... attatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
EST: gi|37187995|gb|CF607346.1|CF607346
EST:     CATTTGAAGGTTTCGCAGTG                         ATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG
genomic: CATTTGAAGGTTTCGCAGTGgttagtgctc ... attatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattattgccatggaagtcgattgttctaaatcttctttcattgtattatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAGAATACTCTTTTTGGGGACATATTTAAGGTCATTCAAATTGACCCAGATG
                        ttctaaa  putative branch site (score: 2)
                                    tttcattgtattatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcgacaaactggtgttctttgttaggaatgatgtgcatgctgttaattattgccatggaagtcgattgttctaaatcttctttcattgtattatatcagATTCTTTTTAGCTGCTAGCTTCTGAGAGATAAACTTGCAGTAACGATGGAGAATACTCTTTTTGGGGACATATTTAAGGTCATTCAAATTGACCCAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- -gacaaac
- - - - - tggtgtt
- - - - - - - - - - - - -ggaatga
- - - - - - - - - - - - - - - - - -gcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgga