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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctttacatgtgtgtttcactcatttcaatacaaatattcattatttatccttggagggaaattattatcacacttgcttggcttaacaacagaaaacagGATAACTACCTTGGGATCAGAGACAATTGGTGGATCTGTATACATTCTGAATCTGACCAGACCATTAGATTTCAATAGCATTCCCATCATAAGGCAAAGA

Basic information

species Vitis vinifera
transcript Vv01s0010g00400.t01
intron # 5
splice site 3'
intron type U12 (go to U12 genes for details)

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|351023432|gb|FQ432815.1|FQ432815
EST:     AAGCACTCTCCTTGTACAATTGATGATCAATCTGCCATTCAGCATGTGTT                         GATAACTACCTTGGGATCAGAGACAATTGGTGGATCTGTATACATTCTGAA
genomic: AAGCACTCTCCTTGTACAATTGATGATCAATCTGCCATTCAGCACGTGTTgtatcctttc ... cagaaaacagGATAACTACCTTGGGATCAGAGACAATTGGTGGATCTGTATACATTCTGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatccttggagggaaattattatcacacttgcttggcttaacaacagaaaacagGATAACTACCTTGGGATCAGAGACAATTGGTGGATCTGTATACATTCTGAATCTGACCAGACCATTAGATTTCAATAGCATTCCCATCATAAGGCAAAGA
                                  tggcttaac  putative branch site 
              aaattattatcaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gctttacatgtgtgtttcactcatttcaatacaaatattcattatttatccttggagggaaattattatcacacttgcttggcttaacaacagaaaacagGATAACTACCTTGGGATCAGAGACAATTGGTGGATCTGTATACATTCTGAATCTGACCAGACCATTAGATTTCAATAGCATTCCCATCATAAGGCAAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - catgtgt
- - - - - - - - -cactcat
- - - - - - - - - - - - - - atacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -agggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctta