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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACATATTCTTGCGAGGCTACCCCCTAGGGTTCACTCTGTCTACTACCGAGATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttatttttctttgcaactgtgaaatgaaattaatttttgaggagtttactaatattattggtttttaaaatggcatgtgaggcatgttttgatatc...

Basic information

species Vitis vinifera
transcript Vv13s0019g04410.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04410.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G32070.1 (Glycine max), 5'ss of exon 4
ACATATTCTTGCGAGGCTACCCCCTAGGGTTCACTCTGTCTACTACCGAGATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttatttttctttgcaactgtgaaatgaaattaatttttgaggagtttactaatattattggt-ttttaaaatggcatgtgaggcatgttttgatatc
|||| || | ||||  |||||||||||||||||||| || |||||| | |||| ||| || ||||| || || || ||| | ||||| |||||| |||||||| |   | || || |    |   |||| | |||  ||||  |  |  |  |   |   ||||   ||||  | | | || |    | |  ||| |||||
ACATCTTTTAGCGAAACTACCCCCTAGGGTTCACTCAGTATACTACAGGGATGGAATAGGAAATATTTCGTCGTCACATCTACGTACAGATTCTTGGAAGgtaatacatgttattgggtcttaataaat-acattccttttctacaacctcccacttgacattgtcatttttcacttgtatatttttctttctttaatatc

upper sequence: Vv13s0019g04410.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G35450.1 (Glycine max), 5'ss of exon 4
ACATATTCTTGCGAGGCTACCCCCTAGGGTTCACTCTGTCTACTACCGAGATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttatttttctttgcaactgtgaaatgaaattaatttttgaggagtttactaatattattggtttt-taaaatggcatgtgaggcatgttttgatatc
|||| || | ||||  |||||||||||||||||||| || |||||| | |||| ||| || ||||| || || || ||| | ||||| |||||| |||||||| | || | |  |||   ||    ||  | |||  ||||     |  |  |   |   ||||   ||    | |   || |    | |  ||| |||||
ACATCTTTTAGCGAAACTACCCCCTAGGGTTCACTCAGTATACTACAGGGATGGAATAGGAAATATTTCCTCTTCACATCTACGTACAGATTCTTGGAAGgtaat-atatgttattgggtcttaataaacacattccttttctccaacctcccacttgacattgtcattgctcacttttatatttttctttctttaatatc
















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|161714140|gb|FC064411.1|FC064411
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|351015486|gb|FQ447315.1|FQ447315
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|71881801|gb|DT030856.1|DT030856
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|37187617|gb|CF606970.1|CF606970
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|349824067|gb|FQ417454.1|FQ417454
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|351031867|gb|FQ460124.1|FQ460124
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|352790365|gb|FQ478005.1|FQ478005
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|349812777|gb|FQ410419.1|FQ410419
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|349816667|gb|FQ404914.1|FQ404914
EST:     ATGAAATTGGGGATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|77585403|gb|DV221793.1|DV221793
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|351051855|gb|FQ455269.1|FQ455269
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|351045790|gb|FQ440975.1|FQ440975
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|349811345|gb|FQ407571.1|FQ407571
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|351048526|gb|FQ448800.1|FQ448800
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|351053182|gb|FQ455639.1|FQ455639
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|349807244|gb|FQ401236.1|FQ401236
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
EST: gi|110414535|gb|EC980369.1|EC980369
EST:     ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAG                         TCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC
genomic: ATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttattt ... ttctttacagTCAGAATTGGAAATAGAACCACGGTATCCTTTATTTGGAGGTTGGAAAGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACATATTCTTGCGAGGCTACCCCCTAGGGTTCACTCTGTCTACTACCGAGATGAAATTGGGAATATCTCTTCATCGCATTTGCGTACGGATTCTCGGAAGgtacttatttttctttgcaactgtgaaatgaaattaatttttgaggagtttactaatattattggtttttaaaatggcatgtgaggcatgttttgatatc

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