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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagaaggaattcaatttcagtacttccatatcctgtccatgcctagttctattcatgagtaaggcttgtagttgatgatgtttatgcaattcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATTACTGCAAAATCTTCAGCATATTTGCCGGTTTATGAGGCATGCATTCACA

Basic information

species Vitis vinifera
transcript Vv05s0077g00450.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|349826987|gb|FQ419078.1|FQ419078
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|352790289|gb|FQ481488.1|FQ481488
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|110371788|gb|EC935911.1|EC935911
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351020178|gb|FQ445785.1|FQ445785
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351012632|gb|FQ430195.1|FQ430195
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351035225|gb|FQ458582.1|FQ458582
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|77585781|gb|DV221988.1|DV221988
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|110699651|gb|EE076846.1|EE076846
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|161721087|gb|FC070010.1|FC070010
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|77584045|gb|DV221061.1|DV221061
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351021937|gb|FQ437724.1|FQ437724
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351038573|gb|FQ464439.1|FQ464439
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|349810864|gb|FQ405852.1|FQ405852
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|352764064|gb|FQ467634.1|FQ467634
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351019601|gb|FQ439418.1|FQ439418
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|349825550|gb|FQ419467.1|FQ419467
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351040297|gb|FQ425383.1|FQ425383
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCAAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCAACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|71871946|gb|DT021001.1|DT021001
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|110382331|gb|EC939186.1|EC939186
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|349816444|gb|FQ403819.1|FQ403819
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|349819177|gb|FQ412071.1|FQ412071
EST:     TCTACTCCGCTCCCGACAAGTACGACGTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACATCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|349809699|gb|FQ398304.1|FQ398304
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
EST: gi|351019744|gb|FQ439561.1|FQ439561
EST:     TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAG                         GTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT
genomic: TCTACTCCGCTCTCGACAAGTACGACTTCAATTCCGAAATTGGCACCAAGgttggaggcc ... tcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctattcatgagtaaggcttgtagttgatgatgtttatgcaattcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATTACTGCAAAATCTTCAGCATATTTGCCGGTTTATGAGGCATGCATTCACA
                        agttgat  putative branch site (score: 5)
                                            ttcattttc  putative PPT
                                          aattcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagaaggaattcaatttcagtacttccatatcctgtccatgcctagttctattcatgagtaaggcttgtagttgatgatgtttatgcaattcattttcagGTTAAGGGAACGGTGTTTTGCACCGACACCAATGGGGCACTTGTAGACATTACTGCAAAATCTTCAGCATATTTGCCGGTTTATGAGGCATGCATTCACA

-agaagga
- - - - - - - - - - -acttcca
- - - - - - - - - - - - - - - - - - ccatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcaa