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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttctttgctttatggtcatatctgggtggaaaattttacactgcttcagatttcttaatacttccatttcttctcaaatttcacattcaaaatgaattgtttgttgtggtggtcttcgatcccttatactgagtttgttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG

Basic information

species Vitis vinifera
transcript Vv06s0004g00060.t01
intron # 3
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|110688296|gb|EE066688.1|EE066688
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|110711311|gb|EE087659.1|EE087659
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|110702984|gb|EE079435.1|EE079435
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|110713034|gb|EE088602.1|EE088602
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|27586580|gb|CB009275.1|CB009275
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|110692596|gb|EE072018.1|EE072018
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|71859349|gb|DT008404.1|DT008404
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTCCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|71857308|gb|DT006363.1|DT006363
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|161716048|gb|FC069121.1|FC069121
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|294966527|gb|GW837662.1|GW837662
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|110693463|gb|EE069714.1|EE069714
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
EST: gi|110688262|gb|EE066614.1|EE066614
EST:     AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTG                         TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT
genomic: AGGATTTAGCCAAGTCTGTTGTGTCTGAAGGGGGCTGGTCAAACTTGCTGgtattttctt ... ttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattgtttgttgtggtggtcttcgatcccttatactgagtttgttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG
                                         tttgttttcctt  CT-rich tract
                                         tttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttctttgctttatggtcatatctgggtggaaaattttacactgcttcagatttcttaatacttccatttcttctcaaatttcacattcaaaatgaattgtttgttgtggtggtcttcgatcccttatactgagtttgttttccttagTGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA