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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcattccacacttgtcttcaaccccaaatctcttaaaagtgttcgatgaaatcaaattcttaaaatcttcctttgaacttaatctgaatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAGGAGGAACATGCGTTGCCCTAATCATCATGGGAGGCTCAACAATGAAGCA

Basic information

species Vitis vinifera
transcript Vv03s0038g03530.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|294966727|gb|GW837746.1|GW837746
EST:     AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTGG                         GTGAAAAGATGGGGAATATTTCCGCGATATTTCCGATAATGTATCTATCAG
genomic: AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTGgtaagcattc ... aatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
EST: gi|352781098|gb|FQ466411.1|FQ466411
EST:     AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTG                         GTGAANAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAN
genomic: AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTGgtaagcattc ... aatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
EST: gi|71858169|gb|DT007224.1|DT007224
EST:     AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTG                         GTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
genomic: AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTGgtaagcattc ... aatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
EST: gi|110729570|gb|EE105654.1|EE105654
EST:     AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTG                         GTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
genomic: AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTGgtaagcattc ... aatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
EST: gi|161719576|gb|FC067036.1|FC067036
EST:     AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTG                         GTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
genomic: AACCGGCATGCGATTCAGCCGATACCTTCAGCTCTTCAATGCAACTTTTGgtaagcattc ... aatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAG
EST: gi|161716566|gb|FC065244.1|FC065244
EST:     ACCGGCATGCGATTCAGCCGATAC-TTCAGCTCTTTCA-TGCA-CTTTTG                         GTGAAA-GATGGGGA-TATTTT-GCGATATT-CCGATA-TGTATCTAT
genomic: ACCGGCATGCGATTCAGCCGATACCTTCAGCTCTT-CAATGCAACTTTTGgtaagcattc ... aatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgatgaaatcaaattcttaaaatcttcctttgaacttaatctgaatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAGGAGGAACATGCGTTGCCCTAATCATCATGGGAGGCTCAACAATGAAGCA
                                   acttaat  putative branch site (score: 4)
       aaatcaaattcttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcattccacacttgtcttcaaccccaaatctcttaaaagtgttcgatgaaatcaaattcttaaaatcttcctttgaacttaatctgaatgtgtcagGTGAAAAGATGGGGAATATTTTTGCGATATTTCCGATAATGTATCTATCAGGAGGAACATGCGTTGCCCTAATCATCATGGGAGGCTCAACAATGAAGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC