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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaattttttccttgagatggttatttgaggttggatgataaatattgaagtatcagcttatattggctttctaatcaattcaaaacctgtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAATTGTAGTGAACTGAAGGAGGATGCAAGTTATTCTCATGAACGTTTATTC

Basic information

species Vitis vinifera
transcript Vv15s0048g02540.t01
intron # 6
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|219555118|gb|FG984379.1|FG984379
EST:     AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATG                         GTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
genomic: AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATGgtgagtttct ... gtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
EST: gi|30323643|gb|CD006905.1|CD006905
EST:     AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATG                         GTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
genomic: AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATGgtgagtttct ... gtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
EST: gi|219555215|gb|FG984916.1|FG984916
EST:     AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATG                         GTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
genomic: AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATGgtgagtttct ... gtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
EST: gi|110687475|gb|EE064923.1|EE064923
EST:     AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATG                         GTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
genomic: AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATGgtgagtttct ... gtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
EST: gi|30325922|gb|CD009184.1|CD009184
EST:     AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATG                         GTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
genomic: AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATGgtgagtttct ... gtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
EST: gi|32247880|gb|CD713699.1|CD713699
EST:     AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATG                         GTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
genomic: AGTGATGAAAGGCATACACTAAACCATTCCAACTCTTCTGCCTTTTCATGgtgagtttct ... gtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
EST: gi|34546174|gb|CF514406.1|CF514406
EST:     TACACTAAACCATTCCAACTCTTCTGCCTTTTCATG                         CTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA
genomic: TACACTAAACCATTCCAACTCTTCTGCCTTTTCATGgtgagtttct ... gtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgaagtatcagcttatattggctttctaatcaattcaaaacctgtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAATTGTAGTGAACTGAAGGAGGATGCAAGTTATTCTCATGAACGTTTATTC
                         ttctaat  putative branch site (score: 2)
                            taatcaattcaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgaattttttccttgagatggttatttgaggttggatgataaatattgaagtatcagcttatattggctttctaatcaattcaaaacctgtgtccacagGTATAATAATGGGAAGTCATTGCAACCCCTTTTTCCAACATCGGCCATTAATTGTAGTGAACTGAAGGAGGATGCAAGTTATTCTCATGAACGTTTATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - -ttccttg
- - - - - - - - - - - - - - - - - - - -ataaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaacc