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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattattccaagttcggctttgaatacaagtttttcaaatcccagtctcctaccgactctgatttttcatttttccttcttctgtgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATACCGGGCATGAAAGGTATCCGTTTGAAGGATCTCCCGAGCTTCATTCGGAC

Basic information

species Vitis vinifera
transcript Vv18s0001g06060.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|351012789|gb|FQ430352.1|FQ430352
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|352768578|gb|FQ467534.1|FQ467534
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|352791249|gb|FQ477535.1|FQ477535
EST:     CTATGTGCATTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|351026480|gb|FQ428492.1|FQ428492
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|351043783|gb|FQ431335.1|FQ431335
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|351019280|gb|FQ429440.1|FQ429440
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|351028765|gb|FQ433195.1|FQ433195
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|161720203|gb|FC070855.1|FC070855
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|351015698|gb|FQ427183.1|FQ427183
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|161716155|gb|FC064627.1|FC064627
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|349830783|gb|FQ417081.1|FQ417081
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
EST: gi|352768376|gb|FQ469551.1|FQ469551
EST:     CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAG                         ATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC
genomic: CTATGTGCAGTATCGCAGTCTCATCGACAAGGGTTTTACACCACTCAAAGgtattattcc ... tgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccagtctcctaccgactctgatttttcatttttccttcttctgtgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATACCGGGCATGAAAGGTATCCGTTTGAAGGATCTCCCGAGCTTCATTCGGAC
                 ctctgat  putative branch site (score: 4)
                 ctctgatttttcattt  CT-rich tract
                    tgatttttcattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattattccaagttcggctttgaatacaagtttttcaaatcccagtctcctaccgactctgatttttcatttttccttcttctgtgatatgcagATGAGAGTTATCTAACAAATGGGTATTTGGATACTGTTGTTGATTGGATACCGGGCATGAAAGGTATCCGTTTGAAGGATCTCCCGAGCTTCATTCGGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT