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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGGTTCGATTGACCCATCTAGGGTGTTAGAGAAGGCCCACTCAAGCACAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttactttccctttttagaggctccccgtactcatctctggtcttagtattacaattctcagaatgacttatgcacttttgattattttaaacaaa...

Basic information

species Vitis vinifera
transcript Vv04s0023g01400.t01
intron # 3
splice site 5'
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|110701811|gb|EE079807.1|EE079807
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGCAG                       
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGA-C--CAGgtttgttact ... ctttcagc
EST: gi|351052832|gb|FQ456560.1|FQ456560
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|351052832|gb|FQ456560.1|FQ456560
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|351052832|gb|FQ456560.1|FQ456560
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|110689520|gb|EE065814.1|EE065814
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         GGACTCCAAGCCATTAATCTAGGGGACAGTGGATTTATAGTGGTTCGAGAT
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcagGGACTCCAAGCCATTAATCTAGGGGACAGTGGATTTATAGTGGTTCGAGAT
EST: gi|349828542|gb|FQ417284.1|FQ417284
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|349828542|gb|FQ417284.1|FQ417284
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|349828542|gb|FQ417284.1|FQ417284
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|30255134|gb|CB971581.1|CB971581
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         GGACTCCAAGCCATTAATCTAGGGGACAGTGGATTTATAGTGGTTCGAGAT
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcagGGACTCCAAGCCATTAATCTAGGGGACAGTGGATTTATAGTGGTTCGAGAT
EST: gi|110388710|gb|EC953488.1|EC953488
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGCAG                       
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGA-C--CAGgtttgttact ... ctttcagc
EST: gi|30256381|gb|CB972224.1|CB972224
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         GGACTCAAAGCCATTAATCT
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcagGGACTCCAAGCCATTAATCT
EST: gi|110374317|gb|EC939469.1|EC939469
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGCAG                       
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGA-C--CAGgtttgttact ... ctttcagc
EST: gi|110418567|gb|EC984727.1|EC984727
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGCAG                       
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGA-C--CAGgtttgttact ... ctttcagc
EST: gi|349826006|gb|FQ415811.1|FQ415811
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|349826006|gb|FQ415811.1|FQ415811
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|349826006|gb|FQ415811.1|FQ415811
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         C
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcag-
EST: gi|26261618|gb|CA812681.1|CA812681
EST:     CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAG                         GGACTCCAAGCCATTAATCTAGGGGACAGTGGATTTATAGTGGTTCGAGAT
genomic: CAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttact ... ctttcagcagGGACTCCAAGCCATTAATCTAGGGGACAGTGGATTTATAGTGGTTCGAGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGGGTTCGATTGACCCATCTAGGGTGTTAGAGAAGGCCCACTCAAGCACAAAAGCGAAAGGATCTTCAACAGCTTGCATTGTAGCCCTCACAGACCAGgtttgttactttccctttttagaggctccccgtactcatctctggtcttagtattacaattctcagaatgacttatgcacttttgattattttaaacaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccccg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaacaa