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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccattcttcaagcatcatggcttcatttttctgtgtcttgtatttttattcttgggtttcttgtaattccatgtcaactattttgggtgattttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCACCACCCAGAAGAGAACCAGGTTTCCTTGAGGGATG

Basic information

species Vitis vinifera
transcript Vv00s0415g00070.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|110398002|gb|EC964051.1|EC964051
EST:     CCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: CCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110393384|gb|EC958583.1|EC958583
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110400723|gb|EC967298.1|EC967298
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110369236|gb|EC933390.1|EC933390
EST:     GAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: GAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110386846|gb|EC951476.1|EC951476
EST:     CGACCCCAAGTACGCTTATCCCTACCCTGCCTAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: CGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110426872|gb|EC993297.1|EC993297
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCGGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|46910888|gb|CN546263.1|CN546263
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110410555|gb|EC976240.1|EC976240
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110404769|gb|EC970291.1|EC970291
EST:     CTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCGGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: CTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110374129|gb|EC938684.1|EC938684
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110366068|gb|EC929723.1|EC929723
EST:     GCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: GCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110376573|gb|EC941631.1|EC941631
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110398430|gb|EC964788.1|EC964788
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|34549343|gb|CF517575.1|CF517575
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110407032|gb|EC972623.1|EC972623
EST:     CCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: CCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|32459990|gb|CD801164.1|CD801164
EST:     TCTTGAAGATGAACGACACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TCTTGAAGATGAACG--ACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
EST: gi|110398564|gb|EC965017.1|EC965017
EST:     TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAG                         GGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC
genomic: TTTCTTGAAGATGAACGACCCCAAGTACGCTTATCCCTACCCTGCCCAAGgtacttttct ... attttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattcttgggtttcttgtaattccatgtcaactattttgggtgattttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCACCACCCAGAAGAGAACCAGGTTTCCTTGAGGGATG
                                              ttttctc  CT-rich tract
                               aactatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccattcttcaagcatcatggcttcatttttctgtgtcttgtatttttattcttgggtttcttgtaattccatgtcaactattttgggtgattttctcagGGTATTACCAAGGCCCTCCAGTGATGGCACCCCCACAATACGCAGCTCCACCACCCAGAAGAGAACCAGGTTTCCTTGAGGGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
-ccattct
- - - - tcaagca
- - - - - - - -tcatggc
- - - - - - - - - - - - - - - - - tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgggtg