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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttcttaatacctagttaagtttagcctctatgtttttagtgttactagtccaaatttattgaatgaatacactaaaaacttacttttccttgtgtagCTCTCAGTTACTCTTGGAATACTATTGGCATATGTGTTGGGACTTTTTGTTAATTGGAGGGTACTTGCAGTTTTAG

Basic information

species Vitis vinifera
transcript Vv04s0023g01860.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|161706203|gb|FC054967.1|FC054967
EST:     CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAG                         CTCTCAGTTACTCTTGGAATACTATTGGCATATGT
genomic: CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAGgtttgttttc ... ccttgtgtagCTCTCAGTTACTCTTGGAATACTATTGGCATATGT
EST: gi|71882686|gb|DT031741.1|DT031741
EST:     CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAG                         CTCTCAGTTACTCTTGGAATACTATTGGCATATGTGTTGGGACTTTT
genomic: CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAGgtttgttttc ... ccttgtgtagCTCTCAGTTACTCTTGGAATACTATTGGCATATGTGTTGGGACTTTT
EST: gi|71882039|gb|DT031094.1|DT031094
EST:     CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAG                         CTCTCAGTTACTCTTG
genomic: CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAGgtttgttttc ... ccttgtgtagCTCTCAGTTACTCTTG
EST: gi|71889871|gb|DT038926.1|DT038926
EST:     CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAG                         CTCTCAGTTACTCTTGGAATACTATTGGCATATGTGTTGGGACTTTTT
genomic: CTGAGATATCGCCTCAAAATATGAGGGGAGGCTTAGGATCTGTTAACCAGgtttgttttc ... ccttgtgtagCTCTCAGTTACTCTTGGAATACTATTGGCATATGTGTTGGGACTTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactagtccaaatttattgaatgaatacactaaaaacttacttttccttgtgtagCTCTCAGTTACTCTTGGAATACTATTGGCATATGTGTTGGGACTTTTTGTTAATTGGAGGGTACTTGCAGTTTTAG
                                  aacttac  putative branch site (score: 2)
                                    cttacttttccttgt  CT-rich tract
         aaatttattgaatgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgttttcttaatacctagttaagtttagcctctatgtttttagtgttactagtccaaatttattgaatgaatacactaaaaacttacttttccttgtgtagCTCTCAGTTACTCTTGGAATACTATTGGCATATGTGTTGGGACTTTTTGTTAATTGGAGGGTACTTGCAGTTTTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG