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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAAGGGGTGGAGATAACTGCTAATTCACTTCATCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatctgttagccatttaccgaatgtgattcttatgtttctcaaaggcattcttggcatattgaaacgattcgaataacataccttcattgccaa...

Basic information

species Vitis vinifera
transcript Vv02s0025g03380.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g03380.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT4G11410.1 (Arabidopsis thaliana), 5'ss of exon 6
GAAGAAGGGGTGGAGATAACTGCTAATTCACTTCATCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatctgttagcc-atttaccgaatgtga--ttcttatgtttctcaaaggcattcttggcatattgaaacgattcgaataacataccttcat-tgccaa
||| |||| ||| | || |||||||||||||||||||||||| | |||   ||||||||| | || |||||||||||  |  || ||||    ||| |   |  || || |   | |||  ||| | ||||| |  ||  | | | |     | ||| ||      || |||  |    | | ||    
GAACAAGGTGTGAATATCACTGCTAATTCACTTCATCCTGGATCCATTATGACCAATCTTTTACGCTACCACAGCTTCATAAATAgtaaatcctctttcgccttatatatcatttctgactttcctttgtttatttaatac-tgcatactggactgacactcgataaacaacggattaacttgtgt---
















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|110362262|gb|EC925782.1|EC925782
EST:     TCCTGGAGCAATTGCCACCAATTTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|110369965|gb|EC934139.1|EC934139
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|34543255|gb|CF511487.1|CF511487
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|110394584|gb|EC959749.1|EC959749
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTG
EST: gi|110374720|gb|EC939643.1|EC939643
EST:     CTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: CTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|110361021|gb|EC924471.1|EC924471
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|22007077|gb|BQ792111.1|BQ792111
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|110417605|gb|EC983675.1|EC983675
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|34543342|gb|CF511574.1|CF511574
EST:     TCCTGGAGCAATTGCCACCAATCTTTTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
EST: gi|110712661|gb|EE087900.1|EE087900
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTC-ACAGGGA
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAGGGA
EST: gi|34415314|gb|CF414068.1|CF414068
EST:     TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG                         GCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG
genomic: TCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatc ... ttcaatgcagGCATTGTTAACATGGTTGGTAAATATGTGCTTAAAAATATTCCACAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAAGGGGTGGAGATAACTGCTAATTCACTTCATCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATGgtaataaatctgttagccatttaccgaatgtgattcttatgtttctcaaaggcattcttggcatattgaaacgattcgaataacataccttcattgccaa

- - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaataac