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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATGATTGGGTTCCCCTGGATGAGCAATTAGATACATCGGAGCTTGAGGAGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatctgctacatttatatttgttccagtatttaatatccaaattagaatgtaatcttcagtctatatgacatagatcatcatagttgtcttatgtgcatcacag

Basic information

species Vitis vinifera
transcript Vv19s0027g01660.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0027g01660.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA15G28380.1 (Glycine max), 5'ss of exon 7
AGATGATTGGGTTCCCCTGGATGAGCAATTAGATACATCGGAGCTTGAGGAGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatctgctacatttatatttgttccagtatttaatatccaaattagaatgtaatcttcagtctatatgacatagatcatcatagttgtcttatgtgcatcacag
|||||||||||||||| ||||||| |||||| || |  | || ||||||||| ||||  | ||||| || ||||||||| | ||||||||||||||||||||||| ||  | |||||  | ||||     |||| || || |        |||||| |||      | ||  ||  |      || |   ||| |||            
AGATGATTGGGTTCCCATGGATGAACAATTAAATCCGGCAGAACTTGAGGAGGTTATTAGATCAAAGGAAGCACATTCTAGAGCAGTTGTACTTGAGAGTgtaagtat--gatacataaaaattt----tagtacttcatttgt------gaatgtgatc------ccatgcgaactcctgtttctttcctgttttag-----------

upper sequence: Vv19s0027g01660.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA19G00460.1 (Glycine max), 5'ss of exon 7
AGATGATTGGGTTCCCCTGGATGAGCAATTAGATACATCGGAGCTTGAGGAGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatctgctacatttatatttgttccagtatttaatatccaaattaga----atgtaatcttcagtctatatgacatagatcatcatagttgtcttatgtgcatcacag
|||||||||||||||| ||||||| |||||| || |  | || ||||||||| ||||  | ||||| || ||||||||| | ||||||||||||||||||||||| ||  | |||||  | ||||     |||| || || |   |||  ||    | || | || | || |                                         
AGATGATTGGGTTCCCATGGATGAACAATTAAATCCGGCAGAACTTGAGGAGGTTATTAGATCAAAGGAAGCACATTCTAGGGCAGTTGTACTTGAGAGTgtaagtat--gatacataaaaattt----tagtacttcatttatgaatgtgatctcacgtgaactcctgttttag--------------------------------------
















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|351013338|gb|FQ425043.1|FQ425043
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351056299|gb|FQ454160.1|FQ454160
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351019880|gb|FQ439697.1|FQ439697
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|349829098|gb|FQ419630.1|FQ419630
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351021566|gb|FQ429670.1|FQ429670
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|349828467|gb|FQ417209.1|FQ417209
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351029259|gb|FQ436653.1|FQ436653
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351015245|gb|FQ445529.1|FQ445529
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|352786284|gb|FQ478895.1|FQ478895
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351014040|gb|FQ434192.1|FQ434192
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|349824097|gb|FQ417484.1|FQ417484
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351014258|gb|FQ434847.1|FQ434847
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351019573|gb|FQ439390.1|FQ439390
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351030963|gb|FQ438999.1|FQ438999
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351030959|gb|FQ438995.1|FQ438995
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351015056|gb|FQ444345.1|FQ444345
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351052152|gb|FQ450722.1|FQ450722
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|351036687|gb|FQ457400.1|FQ457400
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
EST: gi|349832490|gb|FQ421051.1|FQ421051
EST:     AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGT                         ATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT
genomic: AGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatct ... tgcatcacagATTGGGGACATTCCTGATGCTGAGATAAAGCCTCCTGACAATGTGCTATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGATGATTGGGTTCCCCTGGATGAGCAATTAGATACATCGGAGCTTGAGGAGCTTATCCGTTCAAAAGAGGCACATTCTCGTGCAGTTGTACTTGAGAGTgtaagcatctgctacatttatatttgttccagtatttaatatccaaattagaatgtaatcttcagtctatatgacatagatcatcatagttgtcttatgtgcatcacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG