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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaatttaatttaagcatctttggttctatttaattttttgggttaatgcactgtgtaatgaaccaaaattgaatataaaggtttttgaatgcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATTGGAAAGTTGAAGTAGCTATGAAATTATATTCGCACATTGTGTAACAAGA

Basic information

species Vitis vinifera
transcript Vv16s0013g00860.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|71857220|gb|DT006275.1|DT006275
EST:     AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|71858828|gb|DT007883.1|DT007883
EST:     AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|294966637|gb|GW839628.1|GW839628
EST:     AGTGGACTCTGCTAAGCTCGTAAATCTTCGAGTCTTCCCAAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGGGTGGATAAAAGACAGTTAAATT
genomic: AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|71857221|gb|DT006276.1|DT006276
EST:     AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|352773493|gb|FQ472275.1|FQ472275
EST:     GACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: GACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|37190228|gb|CF609577.1|CF609577
EST:     TTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: TTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|352772284|gb|FQ469809.1|FQ469809
EST:     GACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: GACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|352774235|gb|FQ474758.1|FQ474758
EST:     AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|161716717|gb|FC067838.1|FC067838
EST:     TCTGCTAAGCTCGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: TCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
EST: gi|352768738|gb|FQ467950.1|FQ467950
EST:     AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAG                         GGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT
genomic: AGTGGACTCTGCTAAGCTTGTAAATCTTCGAGTCTTCCCTAAGATCGAAGgttgcttctg ... gcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcactgtgtaatgaaccaaaattgaatataaaggtttttgaatgcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATTGGAAAGTTGAAGTAGCTATGAAATTATATTCGCACATTGTGTAACAAGA
 ggttaat  putative branch site (score: 4)
                   aaaattgaatataaag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaatttaatttaagcatctttggttctatttaattttttgggttaatgcactgtgtaatgaaccaaaattgaatataaaggtttttgaatgcaattgcagGGGTTCCTGTTTCTGGTTCCAGCCCTGGTGTGGATAAAAGACAGTTAAATTGGAAAGTTGAAGTAGCTATGAAATTATATTCGCACATTGTGTAACAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - -ttaagca
- - - - - - - - - - - - - - - - - -ttttggg
- - - - - - - - - - - - - - - - - - - - - - aatgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aattgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaagg