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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaacacaccataccatgaatgttagtatattgttcttttgttttaatctggtgtttgacttggtatactctagaagatgagttaaaataattcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTAGGATTCTGTCAGCATTACTGGCATTCTTCATGACCCTTTTCACACTCTT

Basic information

species Vitis vinifera
transcript Vv03s0038g04470.t01
intron # 12
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|351047103|gb|FQ454713.1|FQ454713
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351014493|gb|FQ437495.1|FQ437495
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|30128724|gb|CB914063.1|CB914063
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351056783|gb|FQ443410.1|FQ443410
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351026103|gb|FQ428115.1|FQ428115
EST:     GCAAGTTGGAAAAAGCAATCTGCTCTTCAAAAGGC-TTCCTCATCCAAAG                         GAACACTCCCCCTACTC
genomic: GCAGGTTGGAAGAAGCAAGCTGCTCTTCAAA-GGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTC
EST: gi|351027625|gb|FQ446789.1|FQ446789
EST:     TGCAGGTTGGAAGAAGCAATCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTTCCAGAAGGAAATCATACT
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCT-CCAGAAGGAATTCATACT
EST: gi|349826667|gb|FQ418758.1|FQ418758
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351044521|gb|FQ443052.1|FQ443052
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351039650|gb|FQ461517.1|FQ461517
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351056747|gb|FQ443374.1|FQ443374
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCCTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|87584671|gb|DY473747.1|DY473747
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|349819344|gb|FQ412238.1|FQ412238
EST:     TGCAGGTTGGAAGAA-CAATCTGCTCTTCAA-GGCCTTCCTCATCCAAAG                         GAAC-CTCCCCCTACTCGGTACTCAAAAGTC
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTC
EST: gi|351034834|gb|FQ458191.1|FQ458191
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351054162|gb|FQ450244.1|FQ450244
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA
EST: gi|351038002|gb|FQ460744.1|FQ460744
EST:     TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAG                         GAACACTCCCCCTACTCGGTACTCAAAAGTCTCCAGAAGGAATTCATACTA
genomic: TGCAGGTTGGAAGAAGCAAGCTGCTCTTCAAAGGCCTTCCTCATCCAAAGgttagtaaga ... ttcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctggtgtttgacttggtatactctagaagatgagttaaaataattcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTAGGATTCTGTCAGCATTACTGGCATTCTTCATGACCCTTTTCACACTCTT
                                  agttaaaataattcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaacacaccataccatgaatgttagtatattgttcttttgttttaatctggtgtttgacttggtatactctagaagatgagttaaaataattcaatgcagGAACACTCCCCCTACTCGATACTCAAAAGTCTCCAGAAGGAATTCATACTAGGATTCTGTCAGCATTACTGGCATTCTTCATGACCCTTTTCACACTCTT

- -cacacca
- - - - - - ccatgaa
- - - - - - - - - - - - - - - - - - - - - - - -ctggtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa