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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatgtagctatcaagcaactggaatcttttcatttagtgaaaacattattctttgctgtgattttaggttgatcatttctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTTCTGTTGGATGTGCTGATATCAATTGTTCTTGGTGTCTCTGCATTGCCTG

Basic information

species Vitis vinifera
transcript Vv02s0025g03030.t01
intron # 6
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|351021798|gb|FQ437183.1|FQ437183
EST:     GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAGGAACAAGCAAGG                         GGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
genomic: GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAGGAACAAGCAAGGgtaagaatgt ... tctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
EST: gi|110362211|gb|EC925728.1|EC925728
EST:     GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAGGAACAAGCAAGG                         GGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
genomic: GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAGGAACAAGCAAGGgtaagaatgt ... tctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
EST: gi|71857563|gb|DT006618.1|DT006618
EST:     GGGTTGACCCAAACTTTGGAGGGTCAAATATTGCGCAGGAACAAGCAAGG                         GGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
genomic: GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAGGAACAAGCAAGGgtaagaatgt ... tctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
EST: gi|34548802|gb|CF517034.1|CF517034
EST:     GGGTTGACCCAAACTTTAGAGGGTCGAATATTGCGCAGGAACAAGCAAGG                         GGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
genomic: GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAGGAACAAGCAAGGgtaagaatgt ... tctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
EST: gi|110718208|gb|EE094777.1|EE094777
EST:     GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAAGAACAAGCAAGG                         GGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT
genomic: GGGTTGACCCAAACTTTAGAGGGTCAAATATTGCGCAGGAACAAGCAAGGgtaagaatgt ... tctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttagtgaaaacattattctttgctgtgattttaggttgatcatttctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTTCTGTTGGATGTGCTGATATCAATTGTTCTTGGTGTCTCTGCATTGCCTG
                                  ggttgat  putative branch site (score: 5)
                                        tcatttct  CT-rich tract
       aaaacattattcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaatgtagctatcaagcaactggaatcttttcatttagtgaaaacattattctttgctgtgattttaggttgatcatttctgcaacagGGTTGTTTTAAACCACTTTGGGTGGCTTTGTCAATCCTCATTGGCGGTCTTCTGTTGGATGTGCTGATATCAATTGTTCTTGGTGTCTCTGCATTGCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT