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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaactccccccccccccccacccctctggtgtttgtttacctagaaaataaaatttgtagttttgggatcaaatggactttattttttcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGGGAGCATAACCACCAGCAACCTTCACCAGTTGAGGTGTCATTAGGCTTCA

Basic information

species Vitis vinifera
transcript Vv04s0008g05760.t01
intron # 4
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|29785116|gb|CB341851.2|CB341851
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
EST: gi|29785607|gb|CB342780.2|CB342780
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAGATCAGTCTCTTTTGATAGCCACTTATGAGGGG
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
EST: gi|28963677|gb|CB342710.1|CB342710
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
EST: gi|161716070|gb|FC069125.1|FC069125
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCCACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAAATCAGTCTCTTCTGA
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGA
EST: gi|28962748|gb|CB341781.1|CB341781
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
EST: gi|83274425|gb|DV938522.1|DV938522
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
EST: gi|110703174|gb|EE079787.1|EE079787
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
EST: gi|110387873|gb|EC952573.1|EC952573
EST:     GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAG                         GTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG
genomic: GAGCCTACTTCAAGTGCTCCTTTGCCCCAACCTGCCCTGTCAAAAAGAAGgtaaaactcc ... tcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaaaataaaatttgtagttttgggatcaaatggactttattttttcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGGGAGCATAACCACCAGCAACCTTCACCAGTTGAGGTGTCATTAGGCTTCA
                                   ctttattttttcat  CT-rich tract
                                  actttattttttcata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaactccccccccccccccacccctctggtgtttgtttacctagaaaataaaatttgtagttttgggatcaaatggactttattttttcatattcagGTGCAAAGAAGTGCTGAAGATCAGTCTCTTCTGATAGCCACTTATGAGGGGGAGCATAACCACCAGCAACCTTCACCAGTTGAGGTGTCATTAGGCTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA