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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttatgcgcttctcagtatccagatggagcattagggttttcttttggttcaattgttggttttggtgttttcactaacttgattcttgtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG

Basic information

species Vitis vinifera
transcript Vv07s0005g00230.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|349828814|gb|FQ419147.1|FQ419147
EST:     GCTGGGTGTTCTGC-TTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|349819985|gb|FQ404707.1|FQ404707
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|349819983|gb|FQ404705.1|FQ404705
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|110372194|gb|EC936345.1|EC936345
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|110383606|gb|EC947989.1|EC947989
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|349827595|gb|FQ422463.1|FQ422463
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|351029470|gb|FQ436864.1|FQ436864
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|110692708|gb|EE068197.1|EE068197
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|351012236|gb|FQ426958.1|FQ426958
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|351044635|gb|FQ443166.1|FQ443166
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|351025082|gb|FQ433499.1|FQ433499
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|349828184|gb|FQ415512.1|FQ415512
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|351056955|gb|FQ443582.1|FQ443582
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|110374587|gb|EC939452.1|EC939452
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|351038850|gb|FQ448493.1|FQ448493
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|110372487|gb|EC936658.1|EC936658
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|352790730|gb|FQ478278.1|FQ478278
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
EST: gi|349828185|gb|FQ415513.1|FQ415513
EST:     GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATG                         CTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
genomic: GCTGGGTGTTCTGCTTTTTGTGCCCTAGTAAAAATGgtacgttcct ... gtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggttcaattgttggttttggtgttttcactaacttgattcttgtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG
                                        ttcttgtc  CT-rich tract
     ttcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatttatgcgcttctcagtatccagatggagcattagggttttcttttggttcaattgttggttttggtgttttcactaacttgattcttgtcgccgcagCTTCCTCTCTCCCTATTGAAAACTGCGCAAGGGCATCCTATG

- - tatgcgc
- - - - - - - - -gtatcca
- - - - - - - - - - - - - tggagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactaac