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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATGGTTTGGCTCCCAAGGTGGCAGATAGAAATGCTTCGATAGAGCAAGTGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataaactccctattttcaagctccatgaaaattgaccatttgtttgataattttagattcttttatcgaaagaatcttattctattttgtttgaacag

Basic information

species Vitis vinifera
transcript Vv07s0005g03790.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA10G04480.1 (Glycine max), 5'ss of exon 7
AGATGGTTTGGCTCCCAAGGTGGCAGATAGAAATGCTTCGATAGAGCAAGTGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataaactccctattttcaagctccatgaaaattgaccatttgtttgataattttagattcttttatcgaaagaatcttattctattttgtttgaacag
 ||||||||||||| ||| ||||| |||||||||   ||||| || ||||||||||| || |||||||| |||  ||| ||||||||||| ||  ||||||| |||||   | |   ||   ||||||  ||     ||    || | | | || |   | |||| ||||    |                             
TGATGGTTTGGCTCTCAAAGTGGCTGATAGAAATAAGTCGATTGAACAAGTGAAGAATTTGTATAAACTTTTTGTTGATTGTGACTGCACTCTTTTGGAAgtaagcatttgcacttcata--caagcttaat-----ttatgaatgtctataatgaaaattgattattttgaacag----------------------------

upper sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA13G18730.1 (Glycine max), 5'ss of exon 7
AGATGGTTTGGCTCCCAAGGTGGCAGATAGAAATGCTTCGATAGAGCAAGTGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataaactccctattttcaagctccatgaaaattgaccatttgtttgataattttagattcttttatcgaaagaatcttattctattttgtttgaacag
 ||||||||||||| ||| ||||| |||||||||   ||||| || ||||||||||| || |||||||| |||  ||| ||||||||||| ||  ||||||| |||||    |  | | ||| ||    ||||   | |    |   | || ||   |  ||| | | | ||    | |||       |  ||  |||||||||
TGATGGTTTGGCTCTCAAAGTGGCTGATAGAAATAAGTCGATTGAACAAGTGAAGAATTTGTATAAACTTTTTGTTGATTGTGACTGCACCCTTTTGGAAgtaagcat----ttgcaaattttaa---tcatgtgcactttatacaagcttaatttatgaagaatgtct-atgatgaaaat-------tggttattttgaacag
















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|34545781|gb|CF514013.1|CF514013
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|30255821|gb|CB971953.1|CB971953
EST:     TGAAG-AATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|110397988|gb|EC964029.1|EC964029
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|30305880|gb|CB982674.1|CB982674
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAAC
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAAC
EST: gi|110733074|gb|EE108915.1|EE108915
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAATAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|110428351|gb|EC994820.1|EC994820
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|110688710|gb|EE067574.1|EE067574
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|30256398|gb|CB972241.1|CB972241
EST:     TGAAG-AATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|110714835|gb|EE092196.1|EE092196
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|110362830|gb|EC926386.1|EC926386
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
EST: gi|161713591|gb|FC062524.1|FC062524
EST:     TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTATTGGAA                         ATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA
genomic: TGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataa ... gtttgaacagATCAATCCCATCGCAGAGACTTCAGATAACCAATTAGTAGCTGCTGATGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGATGGTTTGGCTCCCAAGGTGGCAGATAGAAATGCTTCGATAGAGCAAGTGAAGAAATTATATAAACTATTTTGTGAATGTGACTGCACACTACTGGAAgtgagcataaactccctattttcaagctccatgaaaattgaccatttgtttgataattttagattcttttatcgaaagaatcttattctattttgtttgaacag

- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA