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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAACAAATGTTAATTGCACTTCTGTGTGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgttgaactgagctatgagcaaccacataattctcttggagaattcattgaacatgctacattactacatcacatgttttgtccagtcaacata...

Basic information

species Vitis vinifera
transcript Vv02s0236g00140.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0236g00140.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA05G05580.1 (Glycine max), 5'ss of exon 7
GTCAAACAAATGTTAATTGCACTTCTGTGTGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtga-------cttgttgaactgagctatgagcaaccacataattctcttggagaattcattgaacatgctacattactac--------atcacatgttttgtccagtcaacata--------------------------------------------------------
||||| |||||||||||||||||||| | ||| || || ||||||||||| |||||   ||| || | ||| ||||| ||||| |        || | ||| |    ||| |      | ||||||    || |  ||  |   || ||  |  |||  | |        ||| | | | || |   | || ||                                                          
GTCAAGCAAATGTTAATTGCACTTCTTTTTGAGTCGGATATGAAGTTGGCAGATGATGTCATAGAAACAATTCTTGACAAGgttagttatgctttatagaattcctatataatagtgtagataatttgtctgcattatgaaagaaatatagtttattgttgccatgttgtatctcctatatttttttggcatcaattatcacaaattaaataaaaggcttaaatttgacattgtatttttatttttggccag

upper sequence: Vv02s0236g00140.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA17G15900.1 (Glycine max), 5'ss of exon 5
GTCAAACAAATGTTAATTGCACTTCTGTGTGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgt-tgaactgagctatgagcaaccac---ataattctcttggagaattcattgaacatgctacattactacatcacatgttttgtccagtcaacata--------------------------------------------------------------------
|||||  ||||||||||||||||||| | ||| || || ||||||||||| |||||   ||| || | ||| ||||| ||||| | || |    |  ||  |   |   |  ||   ||||||    ||  | ||| ||  || |       ||  |   |  |||||| | ||   |  |  |                                                                     
GTCAAGGAAATGTTAATTGCACTTCTTTTTGAGTCGGATATGAAGTTGGCAGATGATGTCATAGAAACAATTCTTGACAAGgttagttatgcttatagaattccaaaataatactagataatttgtctgctgcatt-atgaaagaaatatagtttatggctgccatgttgtatctcctatatttttttggcatcaattatttcaaacaaaatagaaggcttaagtttgacatcgtatttttattattgtccag

upper sequence: Vv02s0236g00140.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT4G17615.2 (Arabidopsis thaliana), 5'ss of exon 6
GTCAAACAAATGTTAATTGCACTTCTGTGTGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgttgaactgagctatgagcaaccacata--attctcttggagaattcattgaacatgctacattactacatcacatgttttgtccagtcaacata
||||| |||||||| || || ||||| || ||||||||||||||  |||||||||||||||| ||||||||||| ||||||||   ||||||      ||| |      | | ||   || |  || ||||     ||    |||     || || | || | | |  | |     ||     
GTCAAGCAAATGTTGATCGCGCTTCTCTGCGAATCTGAAATGAAACTGGCTGATGAAACCATAGAGATAATACTCGATAAGgtttgttgttgtctaaggctttatttttctagatggtatacatttagagatgatgttcttaatgtggt-ttccttcgtc-cttctcatatatgaacag----

upper sequence: Vv02s0236g00140.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT5G47100.1 (Arabidopsis thaliana), 5'ss of exon 7
GTCAAACAAATGTTAATTGCACTTCTGTGTGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtg-acttgttgaactgagctatgagcaaccacataattctcttggagaattcattgaacatgctacattactacatcacatgttttgtccagtcaacata
|| || || ||||| ||||||||||| || ||||||||||||||  |||||||||| || || ||||| ||||||||| ||||  ||||||||   |    ||  ||        |  || |||   | ||   |  ||   |  ||    |||  |     | |||  |   || ||||  
GTGAAGCAGATGTTGATTGCACTTCTCTGCGAATCTGAAATGAAACTGGCTGATGATACAATAGAGATGATACTTGATCAGgtttacttgttg---tctattacaagt-------ttgttttctgtcaaaagaaa--gactgttttatgaaactcgagtttttttttcttttcgtgaacag-

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|32246390|gb|CD712209.1|CD712209
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|110414802|gb|EC980660.1|EC980660
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|352789785|gb|FQ478600.1|FQ478600
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|27581540|gb|CB004235.1|CB004235
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|27580184|gb|CB002879.1|CB002879
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|349822445|gb|FQ412709.1|FQ412709
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATGAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|71873772|gb|DT022827.1|DT022827
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAAT
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAAT
EST: gi|349820979|gb|FQ408687.1|FQ408687
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATC
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATC
EST: gi|349819279|gb|FQ412173.1|FQ412173
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|349826413|gb|FQ417910.1|FQ417910
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|110418331|gb|EC984477.1|EC984477
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|32245760|gb|CD711579.1|CD711579
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|349832733|gb|FQ422257.1|FQ422257
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|30131430|gb|CB916769.1|CB916769
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|110382953|gb|EC947286.1|EC947286
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|351019013|gb|FQ426512.1|FQ426512
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|351055152|gb|FQ440491.1|FQ440491
EST:     AATCTGNAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|33401878|gb|CF207505.1|CF207505
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|351014198|gb|FQ434787.1|FQ434787
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|349815321|gb|FQ400476.1|FQ400476
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|110716343|gb|EE091242.1|EE091242
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|351038650|gb|FQ464516.1|FQ464516
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACGTTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|30297304|gb|CB974098.1|CB974098
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|34549400|gb|CF517632.1|CF517632
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
EST: gi|110699550|gb|EE076647.1|EE076647
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGGAT-GATAAATCTGA
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGG-ATTGATAAATCTGA
EST: gi|45770983|gb|CN006835.1|CN006835
EST:     AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG                         ACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG
genomic: AATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgtt ... ttatcaacagACATTCTTGGAAGCTGACGTAAATCAGGATGGGAGGATTGATAAATCTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCAAACAAATGTTAATTGCACTTCTGTGTGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAGgtgacttgttgaactgagctatgagcaaccacataattctcttggagaattcattgaacatgctacattactacatcacatgttttgtccagtcaacata

- - - - - - - - - - - - - - - - - - - - - - - - GCTGAT