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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattctcccgctttcgtctgtggttcaattgaaatctatgattttttttttcttaacattttcttgggtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG

Basic information

species Vitis vinifera
transcript Vv00s0220g00030.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|27585892|gb|CB008587.1|CB008587
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|34319677|gb|CF372431.1|CF372431
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|27580636|gb|CB003331.1|CB003331
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|32246334|gb|CD712153.1|CD712153
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|110730178|gb|EE106958.1|EE106958
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|110383296|gb|EC947661.1|EC947661
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|110419842|gb|EC986096.1|EC986096
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|77578909|gb|DV218261.1|DV218261
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|110426527|gb|EC992940.1|EC992940
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|110686902|gb|EE063845.1|EE063845
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|110380052|gb|EC945289.1|EC945289
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|27579125|gb|CB001820.1|CB001820
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|110731217|gb|EE109189.1|EE109189
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|27580948|gb|CB003643.1|CB003643
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|30125982|gb|CB911321.1|CB911321
EST:     GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|34549721|gb|CF517953.1|CF517953
EST:     GACTGGGAAGCCTGTCATCGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|34544804|gb|CF513036.1|CF513036
EST:     GACTGGGAAGCCTGTCATCGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|27586320|gb|CB009015.1|CB009015
EST:     GTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
EST: gi|34544882|gb|CF513114.1|CF513114
EST:     GACTGGGAAGCCTGTCATCGTCAAACTCAAGTGGGGAATGGAGTACAAAG                         GTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
genomic: GACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctc ... gtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcaattgaaatctatgattttttttttcttaacattttcttgggtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG
                            tcttaac  putative branch site (score: 2)
                                              ttttttt  putative PPT
     attgaaatctatgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattctcccgctttcgtctgtggttcaattgaaatctatgattttttttttcttaacattttcttgggtttttttagGTTATCTCGTATCAGTGGATTCATACATGAACTTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA