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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatagatattctgaatgcattgctattgctaattcattcaatagatgcggcactaaccattatggaattttattatgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGGACACCGTTCTAATTGTGAAGAATGGAAGGACCAGATTAAGTAGTATGCT

Basic information

species Vitis vinifera
transcript Vv18s0164g00100.t01
intron # 5
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|110429104|gb|EC995592.1|EC995592
EST:     CCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAG                         GGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
genomic: CCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAGgtatatatag ... tgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
EST: gi|110427725|gb|EC994175.1|EC994175
EST:     AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAG                         GGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
genomic: AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAGgtatatatag ... tgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
EST: gi|51050500|gb|CO818583.1|CO818583
EST:     AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAG                         GGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
genomic: AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAGgtatatatag ... tgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
EST: gi|110426707|gb|EC993125.1|EC993125
EST:     AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAG                         GGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
genomic: AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAGgtatatatag ... tgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
EST: gi|110716959|gb|EE092397.1|EE092397
EST:     AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATC-AG                         GGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG
genomic: AGTACCCACGAATGGGTGGGCTGCCATCAGATTCAGAGCTGATAATCCAGgtatatatag ... tgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcattcaatagatgcggcactaaccattatggaattttattatgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGGACACCGTTCTAATTGTGAAGAATGGAAGGACCAGATTAAGTAGTATGCT
                    cactaac  putative branch site (score: 1)
                            attatggaattttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatatagatattctgaatgcattgctattgctaattcattcaatagatgcggcactaaccattatggaattttattatgttaattagGGGTATGGTTCATGCATTGTCATTTGGAAAGACATTCCAGCTGGGGCATGGACACCGTTCTAATTGTGAAGAATGGAAGGACCAGATTAAGTAGTATGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG