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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaaaaaaaaaggagggagagaccagcaaaagggaaaatccagaatatttgtttgattttgtgtagaaaccctaattttttttttgaatttttggggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAGAAAGCTATAGCGAAGTACATAGAAAGAACTTTCGGCGACTTGCCGCCGA

Basic information

species Vitis vinifera
transcript Vv17s0000g02550.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|110684628|gb|EE062127.1|EE062127
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|161718772|gb|FC066349.1|FC066349
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAA
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|161708001|gb|FC057794.1|FC057794
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|110701411|gb|EE078951.1|EE078951
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|110685806|gb|EE062846.1|EE062846
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|110689203|gb|EE065224.1|EE065224
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|161715052|gb|FC062731.1|FC062731
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|161720314|gb|FC071167.1|FC071167
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|351033231|gb|FQ462003.1|FQ462003
EST:     ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACCCTACCCCTAGCCACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
EST: gi|18458797|gb|BM437075.1|BM437075
EST:     ACGGACCACCGCACAACCACCCGCCCTACGCCGAG                         ATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG
genomic: ACGGACCACCGCACAACCACCCGCCCTACGCCGAGgtaaaaaaaa ... gggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttgattttgtgtagaaaccctaattttttttttgaatttttggggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAGAAAGCTATAGCGAAGTACATAGAAAGAACTTTCGGCGACTTGCCGCCGA
                    ccctaat  putative branch site (score: 3)
                 aaaccctaattttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaaaaaaaaaggagggagagaccagcaaaagggaaaatccagaatatttgtttgattttgtgtagaaaccctaattttttttttgaatttttggggcttgcagATGATAACAACGGCAATTGGGGCTTTGAATGAGAGAACGGGGTCGAGTAAGAAAGCTATAGCGAAGTACATAGAAAGAACTTTCGGCGACTTGCCGCCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC