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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgtaaacctaaacccaccttccaactctacttccatttttctataaactaaaactgaactgggtgttggttttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAATGGGAGTTCCCTTCCCAAAGAACCAGCCCATGAGGATATACTCAAGCCTC

Basic information

species Vitis vinifera
transcript Vv05s0062g00240.t01
intron # 2
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|37190411|gb|CF609760.1|CF609760
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGCCGCGACAACGTTCCCATAAGGCTATTCAAGAATGCAAAATCA
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGG-TG-GACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCA
EST: gi|110384516|gb|EC948957.1|EC948957
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|161712707|gb|FC062279.1|FC062279
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|352785797|gb|FQ475800.1|FQ475800
EST:     ACCCGTAACTTCCACAGCTATTCCATCATCTGGACCGCCCGACACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|33407410|gb|CF213037.1|CF213037
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTCCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|110723199|gb|EE100237.1|EE100237
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAAGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|71856339|gb|DT005394.1|DT005394
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|71857510|gb|DT006565.1|DT006565
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|71859664|gb|DT008719.1|DT008719
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|33407341|gb|CF212968.1|CF212968
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTCCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
EST: gi|71856628|gb|DT005683.1|DT005683
EST:     ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCAT                         TTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT
genomic: ACCCGTAACTTCCACACCTATTCCATCATCTGGACCGCCCGGCACATCATgtacgtgtaa ... ttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacttccatttttctataaactaaaactgaactgggtgttggttttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAATGGGAGTTCCCTTCCCAAAGAACCAGCCCATGAGGATATACTCAAGCCTC
                   aactaaa  putative branch site (score: 2)
                                       ttggttttttcttc  putative PPT
        atttttctataaacta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtgtaaacctaaacccaccttccaactctacttccatttttctataaactaaaactgaactgggtgttggttttttcttcagTTTCTTGGTGGACAACGTTCCCATAAGGCTATTCAAGAATGCAGAATCAATGGGAGTTCCCTTCCCAAAGAACCAGCCCATGAGGATATACTCAAGCCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT