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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagagaaatgaaaatacatcaaaacaaaacttaaatcgtaaaagcatagttgcgaaacatggaatatttctgcagtgcttacttcatcgggtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAGAGAACAAGAAGAAATCATCACTGTCCCTGACATCG

Basic information

species Vitis vinifera
transcript Vv01s0011g06000.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|32247852|gb|CD713671.1|CD713671
EST:     GCCGGCATCGCGGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|18459492|gb|BM437770.1|BM437770
EST:     GCCGGCATCGCGGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|77584860|gb|DV221510.1|DV221510
EST:     GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|110382933|gb|EC947265.1|EC947265
EST:     GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|110394608|gb|EC959789.1|EC959789
EST:     GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|351013726|gb|FQ433878.1|FQ433878
EST:     GCCGGCATCGCGGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|30320781|gb|CD004043.1|CD004043
EST:     GCCGGCATCGCGGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|32270682|gb|CD719841.1|CD719841
EST:     GCCGGCATCGCGGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|351012507|gb|FQ430071.1|FQ430071
EST:     GCCGGCATCGCGGAAGTCGCTGCTGGCGCCATCTCCAT-GGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|71869825|gb|DT018880.1|DT018880
EST:     GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCAAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
EST: gi|71870541|gb|DT019596.1|DT019596
EST:     GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGG                         GTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG
genomic: GCCGGCATCGCAGAAGTCGCTGCTGGCGCCATCTCCATGGGACTCGGCGGgtatttttgc ... gtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagttgcgaaacatggaatatttctgcagtgcttacttcatcgggtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAGAGAACAAGAAGAAATCATCACTGTCCCTGACATCG
                              tgcttac  putative branch site (score: 2)
                 aatatttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gagagaaatgaaaatacatcaaaacaaaacttaaatcgtaaaagcatagttgcgaaacatggaatatttctgcagtgcttacttcatcgggtgcgtccagGTACCTTGCGGCCAAAAGCGAAGCTGATCACTACATGAGGGAACTGAAGAGAGAACAAGAAGAAATCATCACTGTCCCTGACATCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
-agagaaa
- - - - -gaaaata
- - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - - -aaaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgcag