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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taattatttccattgaaaatttcgccaaaaaacaacagattatggatttttattttaagtgttttcttgacatgcctgacttctttcttatgtttttcagTTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGGAAAACCTGGACTGAACCTTAA

Basic information

species Vitis vinifera
transcript Vv05s0020g03030.t01
intron # 7
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|32267555|gb|CD716518.1|CD716518
EST:     AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACT                         TTTCTTACAANATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGG
genomic: AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACTgtaagttttt ... tgtttttcagTTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGG
EST: gi|110715874|gb|EE094419.1|EE094419
EST:     AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACT                         TTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAA-TAGCCTTACAGG
genomic: AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACTgtaagttttt ... tgtttttcagTTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGG
EST: gi|110717731|gb|EE093842.1|EE093842
EST:     AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACT                         TTTCTTACAAAATA-TAATCTGACTGGGTCA-GTTCCAAATAGCCTTACAG
genomic: AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACTgtaagttttt ... tgtttttcagTTTCTTACAAAATAATAATCTGACTGG-TCAAGTTCCAAATAGCCTTACAG
EST: gi|110717898|gb|EE094155.1|EE094155
EST:     AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACT                         TTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGG
genomic: AGTGGAGAGATACCATCATCTCTGGGGAACATAGACAGTTTACAAGAACTgtaagttttt ... tgtttttcagTTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttttattttaagtgttttcttgacatgcctgacttctttcttatgtttttcagTTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGGAAAACCTGGACTGAACCTTAA
                            gcctgac  putative branch site (score: 3)
                                  cttctttcttatgttt  CT-rich tract
     tattttaagtgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taattatttccattgaaaatttcgccaaaaaacaacagattatggatttttattttaagtgttttcttgacatgcctgacttctttcttatgtttttcagTTTCTTACAAAATAATAATCTGACTGGTCAAGTTCCAAATAGCCTTACAGGAAAACCTGGACTGAACCTTAA

- - - -ttccatt
- - - - - - - gaaaatt
- - - - - - - - - - - - - - aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacatg