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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtttttgcctatattgatgctaaaaccagtcaaaatcagtacatatactcataaaaattgtgtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACATTTGAAGGAGGACATAAAATTGGCATCGTTGGACGAACTGGCAGTGGGA

Basic information

species Vitis vinifera
transcript Vv16s0050g02480.t01
intron # 8
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|32270844|gb|CD720003.1|CD720003
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATCCATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTTGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|110699494|gb|EE076542.1|EE076542
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|294964669|gb|GW838472.1|GW838472
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|110713613|gb|EE089685.1|EE089685
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|32268391|gb|CD717550.1|CD717550
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATCCATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTTGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|30323099|gb|CD006361.1|CD006361
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATCCATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTTGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|30300431|gb|CB977225.1|CB977225
EST:     TGGACATACATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
genomic: TGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|37184105|gb|CF603459.1|CF603459
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|32249769|gb|CD715588.1|CD715588
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATCCATGATTTACAG                         ATTAGGTATAGACCCGACACACCCCTTGTTCTTTGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
EST: gi|30300354|gb|CB977148.1|CB977148
EST:     CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAG                         ATGATCTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA
genomic: CCCCACCCAATTGGCCAGCTGTGGGGAGAGTGGACATACATGATTTACAGgtagtttttg ... gtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgctaaaaccagtcaaaatcagtacatatactcataaaaattgtgtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACATTTGAAGGAGGACATAAAATTGGCATCGTTGGACGAACTGGCAGTGGGA
 tgctaaa  putative branch site (score: 2)
                          atatactcataaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtttttgcctatattgatgctaaaaccagtcaaaatcagtacatatactcataaaaattgtgtcaaagcagATTAGGTATAGACCCGACACACCCCTTGTTCTTCGTGGGATCAACTGCACATTTGAAGGAGGACATAAAATTGGCATCGTTGGACGAACTGGCAGTGGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA