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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taggacttgcagaaagttatttgatgtttcttgtgatctggtccagtatgtcagttctccactgaattgtctttttattggcatgtcttattcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAGCCCTCTTCTGCATTCAAGATCACCACAACATATGAGTGGGAGGATGTCT

Basic information

species Vitis vinifera
transcript Vv02s0025g03370.t01
intron # 12
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|349822931|gb|FQ399910.1|FQ399910
EST:     GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
EST: gi|351026069|gb|FQ428081.1|FQ428081
EST:     GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
EST: gi|349829212|gb|FQ419744.1|FQ419744
EST:     GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
EST: gi|27584138|gb|CB006833.1|CB006833
EST:     GGAGTGGCTATCCATCAGTCTAGAGGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
EST: gi|110699701|gb|EE076931.1|EE076931
EST:     GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
EST: gi|349817348|gb|FQ405352.1|FQ405352
EST:     GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
EST: gi|351054267|gb|FQ450349.1|FQ450349
EST:     GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
EST: gi|351028430|gb|FQ427326.1|FQ427326
EST:     GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAG                         TGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG
genomic: GGAGTGGCTATCCATCAGTCTAGATGTTCAAAAACTGGTTCAGGATCCAGgtctctctct ... ttcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatgtcagttctccactgaattgtctttttattggcatgtcttattcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAGCCCTCTTCTGCATTCAAGATCACCACAACATATGAGTGGGAGGATGTCT
                                      tgtcttattcttccc  CT-rich tract
                   aattgtctttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taggacttgcagaaagttatttgatgtttcttgtgatctggtccagtatgtcagttctccactgaattgtctttttattggcatgtcttattcttcccagTGATACCCATACCCCAAGGAACTTATCAAGCCCTGTTTCTCCTATTGGGAGCCCTCTTCTGCATTCAAGATCACCACAACATATGAGTGGGAGGATGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - -tgcagaa
- - - - - - - - - - - - - - - - - - - - - - -gtatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tctccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgtc