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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGAAAGCCGGCCACAGAGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagtatttttctcattttcattggaatacgtcaaatgaccataatgaaatacagactaggtaccttgtatttcaaatggattgttaagagaaaaaaaa...

Basic information

species Vitis vinifera
transcript Vv12s0059g00750.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g00750.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA12G31940.1 (Glycine max), 5'ss of exon 9
ATTGAAAGCCGGCCACAGAGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagt--atttttctcattttcat--tggaatacgtcaaatgaccataatgaaatacagactaggtaccttgtatttcaaatggattgttaagagaaaaaaaa-
||||||||||| ||||| || ||    |||||||| || ||||||||||| |||||||||| ||||||||||||    ||||  | |||||||   |||  ||  ||| || ||||  ||   | || |     |  || | ||  ||  ||  | ||| |    |       
ATTGAAAGCCGACCACAAAGAAATCGGCCATTAAGAGTTGTTGATGACTCTAACACTGGAACTGCCAAgtgagttagctttttgccttttcataacggagcaccacaattggccat--tgtctttcatatcgtattgct-gcatgcca--tgtctggttgaagatagtttgtc
















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|27583171|gb|CB005866.1|CB005866
EST:     AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAA                         GTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
genomic: AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagtattt ... atggaggcagGTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
EST: gi|46910391|gb|CN545766.1|CN545766
EST:     AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAGCA                       
genomic: AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCC-A--Agtgagtattt ... atggaggc
EST: gi|46910391|gb|CN545766.1|CN545766
EST:     AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAGCA                       
genomic: AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCC-A--Agtgagtattt ... atggaggc
EST: gi|30129079|gb|CB914418.1|CB914418
EST:     AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAA                         GTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
genomic: AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagtattt ... atggaggcagGTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
EST: gi|51052564|gb|CO819624.1|CO819624
EST:     AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAA                         GTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
genomic: AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagtattt ... atggaggcagGTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
EST: gi|110418797|gb|EC984974.1|EC984974
EST:     AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAA                         GTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
genomic: AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagtattt ... atggaggcagGTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
EST: gi|30329365|gb|CD012627.1|CD012627
EST:     AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAA                         GTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC
genomic: AGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagtattt ... atggaggcagGTATTTTGACTACCTCTTTTATATTGATTTTGAGGCTTCTATGGCTGAGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGAAAGCCGGCCACAGAGGAAGAAACCATTAAGGGTAGTTGATGACTCCAACACTGGAAGTGCCAAgtgagtatttttctcattttcattggaatacgtcaaatgaccataatgaaatacagactaggtaccttgtatttcaaatggattgttaagagaaaaaaaa

- - - - - - - - -  GGAAGA
- - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa