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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcgggaaatggtcatagatcaacacagtaatcatccaagcacgtataaaaaaatgttatggctgaaaaaaattggttcttgattgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTAATTCAAAAGGCAGGGGTTGCCCACAAGATTGACTTCAAAGAAGGCCCTG

Basic information

species Vitis vinifera
transcript Vv03s0063g00140.t01
intron # 3
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|352795208|gb|FQ477318.1|FQ477318
EST:     CTGGCTACTCTCTTCGGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGATATCAACAAAGAAAA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAA
EST: gi|33409666|gb|CF215293.1|CF215293
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|110392855|gb|EC957377.1|EC957377
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|110392663|gb|EC956866.1|EC956866
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|77586769|gb|DV222527.1|DV222527
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|33407984|gb|CF213611.1|CF213611
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|34548696|gb|CF516928.1|CF516928
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|37185411|gb|CF604764.1|CF604764
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCT
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCT
EST: gi|110378003|gb|EC943111.1|EC943111
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|34550193|gb|CF518411.1|CF518411
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|110372307|gb|EC936462.1|EC936462
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|110378272|gb|EC943395.1|EC943395
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|110365089|gb|EC928834.1|EC928834
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|352794669|gb|FQ475167.1|FQ475167
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGTCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|34548780|gb|CF517012.1|CF517012
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|33407910|gb|CF213537.1|CF213537
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|33409385|gb|CF215012.1|CF215012
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
EST: gi|33409469|gb|CF215096.1|CF215096
EST:     CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAG                         ATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA
genomic: CTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaat ... attgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagcacgtataaaaaaatgttatggctgaaaaaaattggttcttgattgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTAATTCAAAAGGCAGGGGTTGCCCACAAGATTGACTTCAAAGAAGGCCCTG
                                        tcttgat  putative branch site (score: 4)
       tataaaaaaatgttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcgggaaatggtcatagatcaacacagtaatcatccaagcacgtataaaaaaatgttatggctgaaaaaaattggttcttgattgttgcagATCCTGGCTATGGACATCAACAAAGAAAATTACGAGCTGGGCCTGCCAGTAATTCAAAAGGCAGGGGTTGCCCACAAGATTGACTTCAAAGAAGGCCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG