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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTTGCGCTAGTGGCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatcttcttcccctctttaaagttctactcaacctaatgtttgtttcatcttttccctgtacagctctaaaactatatacaggatacaagctggt...

Basic information

species Vitis vinifera
transcript Vv19s0090g00830.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0090g00830.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S99_158V6.1 (Physcomitrella patens), 5'ss of exon 7
GATTTTGCGCTAGTGGCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatcttcttcccctctttaaagttctactcaacctaatgtttgtttcatcttttccctgtacagctctaaaactatatacaggatacaagctggt------------------------------------------------------------------
|||| || ||| | || ||| | |||||||| ||||| ||||| ||||||||||||||||| || ||   ||  | || |||      |||||   | |  |  | ||| | |   || ||  | |     |   |  |     ||||  | | | |   ||  |                                                                  
GATTCTGTGCTGGAGGATGTGCTGCAATTGCAGATTCCGGAACTTCTCTGTTAGCTGGTCCTACGgt---tagttcctgcccagagccaaagta--aatgtatttcatggtcgcgacaactggtgctctcccgattgaatgcagatatggatgttgcctactattctaagtgatgccacttgaaaatttgtctctaataagtgcttatgtactgggattgttgtctgatag
















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|352789999|gb|FQ479609.1|FQ479609
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349814602|gb|FQ399242.1|FQ399242
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349811128|gb|FQ406140.1|FQ406140
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349818053|gb|FQ408828.1|FQ408828
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349817267|gb|FQ405271.1|FQ405271
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349811678|gb|FQ409675.1|FQ409675
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349811177|gb|FQ406165.1|FQ406165
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349807900|gb|FQ402291.1|FQ402291
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|352798701|gb|FQ480726.1|FQ480726
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349809773|gb|FQ398398.1|FQ398398
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|351036374|gb|FQ458749.1|FQ458749
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349818969|gb|FQ411664.1|FQ411664
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349816754|gb|FQ399622.1|FQ399622
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|351051626|gb|FQ450178.1|FQ450178
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349817835|gb|FQ407824.1|FQ407824
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349814554|gb|FQ399194.1|FQ399194
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349810986|gb|FQ405974.1|FQ405974
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|349820442|gb|FQ406998.1|FQ406998
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
EST: gi|351037515|gb|FQ460714.1|FQ460714
EST:     GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACA                         ACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC
genomic: GCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatct ... ttatttccagACAATTATTACTGAAGTCAATCATGCCATTGGAGCCTCTGGGTTTGTAAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTTTGCGCTAGTGGCTGTTCAGCAATTGCTGATTCTGGAACCTCTCTGTTAGCTGGTCCAACAgtatgtatcttcttcccctctttaaagttctactcaacctaatgtttgtttcatcttttccctgtacagctctaaaactatatacaggatacaagctggt

- - - - - - -  GCTGTT
- - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatacaa