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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aactactagtgctacattgattgatgaataatagtaattataactgcaaggactactattaattgatggttctcattgaaattttgttcattctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGCAAAGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAA

Basic information

species Vitis vinifera
transcript Vv09s0070g00130.t01
intron # 4
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|110424125|gb|EC990481.1|EC990481
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|110707697|gb|EE084394.1|EE084394
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACATTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTAATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|110729308|gb|EE105444.1|EE105444
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACATTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTAATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|71882306|gb|DT031361.1|DT031361
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|110723130|gb|EE100088.1|EE100088
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACATTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTAATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|71858171|gb|DT007226.1|DT007226
EST:     AAGGAATTCTGGAAATGCTGCAAAAGGTGGGAGCCATACGTTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGC
genomic: AAGGAATTCTGGAAATGCTGCAAAAGGTGG-AGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGC
EST: gi|32245909|gb|CD711728.1|CD711728
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACATTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|110702626|gb|EE078762.1|EE078762
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACATTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTAATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|30134184|gb|CB919522.1|CB919522
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACATTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|161710238|gb|FC058954.1|FC058954
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGG                         ATATCCTAATC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATC
EST: gi|46910138|gb|CN545513.1|CN545513
EST:     GGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
genomic: GGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|71883321|gb|DT032376.1|DT032376
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC
EST: gi|110731600|gb|EE106153.1|EE106153
EST:     GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACATTGCATATGG                         ATATCCTAATCTCAAGAATGTGAGGGAGCTAATTTACAAGAAGGGTTTTGC
genomic: GAAGGAATTCTGGAAATGCTGCAAAAGGTGGAGCCATACGTTGCATATGGgtaggagaaa ... ttctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaaggactactattaattgatggttctcattgaaattttgttcattctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGCAAAGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAA
                                         ttcattct  CT-rich tract
        tactattaattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aactactagtgctacattgattgatgaataatagtaattataactgcaaggactactattaattgatggttctcattgaaattttgttcattctgtgaagATATCCTAATCTCAAGAATGTGAGGGAGCTGATTTACAAGAAGGGTTTTGCAAAGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAA

- - - - -tgctaca
- - - - - - - - - - - -atgaataa
- - - - - - - - - - - - - - - - - - - - - - -gcaagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgatgg