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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTATGATCAAAACAAGCAGAGGAGAATATTGTGGGGTTGGATTGGAGAAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgtttttttctctggttcctacatatatttaaagcctgattcgaactacttgggtgatgatgacaaggctgtgtttggattattttgtgtggcag

Basic information

species Vitis vinifera
transcript Vv02s0154g00090.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0154g00090.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA17G14750.1 (Glycine max), 5'ss of exon 3
GTTCTATGATCAAAACAAGCAGAGGAGAATATTGTGGGGTTGGATTGGAGAAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgtttttttctctggttcctacata-tatttaaagcctgattcgaa-----ctacttgggtgatgatgacaaggctgtgtttggattattttgtgtggcag
||| |||||||| || ||| |||||||| | ||||||||||||||||||||  ||||  | |||| ||||||| |    || || ||||| || |||||||| | ||| | | |    |       || | |||| |  |  |||  ||      ||  | | | || |    ||     ||||     |||  | | |     
GTTTTATGATCAGAATAAGGAGAGGAGACTTTTGTGGGGTTGGATTGGAGAGTCTGACAGTGAATATGCTGATGTAGCCAAAGGTTGGGCTTCAGTTCAGgtatatttatatataatataagagtttaatttttatacacccatttaaaaaaaattatattgttaatcaatcaaaaatcatgttatatgtatgattttta----
















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|161717898|gb|FC068194.1|FC068194
EST:     AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTGCAG                         AGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
genomic: AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgttttt ... tgtgtggcagAGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
EST: gi|161715618|gb|FC066788.1|FC066788
EST:     AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTGCAG                         AGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
genomic: AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgttttt ... tgtgtggcagAGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
EST: gi|110689614|gb|EE065992.1|EE065992
EST:     AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTGCAG                         AGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
genomic: AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgttttt ... tgtgtggcagAGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
EST: gi|30252906|gb|CB970457.1|CB970457
EST:     AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTGCAG                         AGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
genomic: AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgttttt ... tgtgtggcagAGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
EST: gi|30251564|gb|CB969297.1|CB969297
EST:     AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTGCAG                         AGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
genomic: AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgttttt ... tgtgtggcagAGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
EST: gi|294964713|gb|GW838516.1|GW838516
EST:     AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTGCAG                         AGCATTCCAAGGACGGTGGTCTTCGACAACAAGACTGGTACCAATATACTT
genomic: AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgttttt ... tgtgtggcagAGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
EST: gi|30253230|gb|CB970781.1|CB970781
EST:     AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTGCAG                         AGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT
genomic: AAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgttttt ... tgtgtggcagAGCATTCCAAGGACGGTGGTCTTCGACAAGAAGACTGGTACCAATATACTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTATGATCAAAACAAGCAGAGGAGAATATTGTGGGGTTGGATTGGAGAAACTGATGGCGAATCTGCTGATATCAAGAAGGGATGGGCATCTGTTCAGgtctgtttttttctctggttcctacatatatttaaagcctgattcgaactacttgggtgatgatgacaaggctgtgtttggattattttgtgtggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG