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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtttatatttttgtctccatgtaactgttaatatggtttatcatttatttatttatctccactcaaccctacttaaaaaaaaaagaactttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGCCACTGCACTTATTGTCAATAAACGGAGGAGGACTCAGTTCAAAGATTTT

Basic information

species Vitis vinifera
transcript Vv00s0252g00070.t01
intron # 4
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|71865425|gb|DT014480.1|DT014480
EST:     AACCATGACAATGGGCGAATACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|34544009|gb|CF512241.1|CF512241
EST:     ATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: ATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|351035098|gb|FQ458455.1|FQ458455
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|34543920|gb|CF512152.1|CF512152
EST:     CATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: CATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110361713|gb|EC925206.1|EC925206
EST:     AACCATGACAAGGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110709660|gb|EE085316.1|EE085316
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|351019002|gb|FQ426501.1|FQ426501
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|34543038|gb|CF511270.1|CF511270
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|34544541|gb|CF512773.1|CF512773
EST:     AACCTTGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110385422|gb|EC949946.1|EC949946
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110377140|gb|EC942200.1|EC942200
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110712956|gb|EE088454.1|EE088454
EST:     A-CCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACNA                         GTATCTAAATGCCATTCAAA
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAA
EST: gi|34542953|gb|CF511185.1|CF511185
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110685212|gb|EE063375.1|EE063375
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110712683|gb|EE087943.1|EE087943
EST:     C-ATGACAATGGGCGAACAC-CATAATAGACTTTGTT-AATTCAGGA-AA                         GTATCTAATTGCCATTCAA
genomic: CCATGACAATGGGCGAACACACATAATAGACTT-GTTTAAT-CAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAA
EST: gi|294967018|gb|GW839893.1|GW839893
EST:     AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAA                         GTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
genomic: AACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCAGGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGC
EST: gi|110713232|gb|EE088975.1|EE088975
EST:     -CCATGACGATGGGCGAACACACATAATAGACTTGGTTAATCANGGACA-                         GTATCTAAATGCCATTCAAAGCAA-TGCAC
genomic: ACCATGACAATGGGCGAACACACATAATAGACTTGTTTAATCA-GGACAAgtatgccatc ... tttcttccagGTATCTAAATGCCATTCAAA-CAAATGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatttatttatctccactcaaccctacttaaaaaaaaaagaactttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGCCACTGCACTTATTGTCAATAAACGGAGGAGGACTCAGTTCAAAGATTTT
                                            ctttcttcc  CT-rich tract
                          tacttaaaaaaaaaag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgtttatatttttgtctccatgtaactgttaatatggtttatcatttatttatttatctccactcaaccctacttaaaaaaaaaagaactttcttccagGTATCTAAATGCCATTCAAACAAATGCACCCCATCTTTTACGGTATCTTGCCACTGCACTTATTGTCAATAAACGGAGGAGGACTCAGTTCAAAGATTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - ccatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa