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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttggcaactctagaatatcactaaagatgccattaaactcatgcccatcagctgaattctcattatcttcaattcatataacaaattgtcgattctccataatgggtctctgatatccagtgattcttcctccatcttgtctgttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG

Basic information

species Vitis vinifera
transcript Vv14s0060g01280.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|30303713|gb|CB980507.1|CB980507
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|30126995|gb|CB912334.1|CB912334
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|110710234|gb|EE086401.1|EE086401
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAACTTCCAACACAGGTGGGGCATGGGAAAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|110718290|gb|EE094955.1|EE094955
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|110731040|gb|EE108804.1|EE108804
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|110719241|gb|EE096994.1|EE096994
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGGTTCTGGTGTCCAG                         GTTGCCATATCAGCTTTCAACAAAAGTGGGGCATGGGAAAA-GCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|110703428|gb|EE080264.1|EE080264
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|110376741|gb|EC941814.1|EC941814
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|34550177|gb|CF518395.1|CF518395
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
EST: gi|18458099|gb|BM436377.1|BM436377
EST:     TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAG                         GTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA
genomic: TTGAAACTCTTGCTGGAGTTCTTGCTGGTTCACTGGTTTCTGGTGTCCAGgtaactttgg ... gttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataatgggtctctgatatccagtgattcttcctccatcttgtctgttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG
          ctctgat  putative branch site (score: 4)
 ttcttcctccatcttg  putative PPT
 tgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactttggcaactctagaatatcactaaagatgccattaaactcatgcccatcagctgaattctcattatcttcaattcatataacaaattgtcgattctccataatgggtctctgatatccagtgattcttcctccatcttgtctgttttttcagGTTGCCATATCAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA