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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGAGCATCTTCATCATGGGGGGAGGTGAAGGTTCCACTGCAAGAGAAATACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctccttttttgctctttttatttcaatcctcgactttcttttctctccttttcatgcattgctgattctttaagatattttctatcattaatttt...

Basic information

species Vitis vinifera
transcript Vv05s0020g03200.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g03200.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G28340.1 (Glycine max), 5'ss of exon 4
AAAGAGCATCTTCATCATGGGGGGAGGTGAAGGTTCCACTGCAAGAGAAATACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctccttttttgctctttttatttcaatcctcgactttcttttctctccttttcatgcattgctgattctttaagatattttctatcattaatttt----------
|||||   | || || ||||| ||||| ||||| ||||||||||| ||| | || || ||||||||| |||| || ||||| ||||||||||| |||||||||   ||  ||||     | |  | ||   || ||    |   ||| | | |  |  | | |   |||| |  |||| | | ||   |||  |    ||          
AAAGAATGTTTTTATTATGGGAGGAGGAGAAGGCTCCACTGCAAGGGAATTGCTTAGGCATAAGACTATAGACAAAGTTGTAATGTGTGACATAGATGAGgtatagtctcttttg----tataaagttagttcttcattatatatttatataccatgaaggta--actgactagttaaaa-acttaaaatccatgtgcttgctcgagcag

upper sequence: Vv05s0020g03200.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G39440.1 (Glycine max), 5'ss of exon 4
AAAGAGCATCTTCATCATGGGGGGAGGTGAAGGTTCCACTGCAAGAGAAATACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctccttttttgctctttttatttcaatcctcgactttcttttctct-ccttttcatgcattgctgattctttaagatattttctatcattaatttt-------------
|||||   | || || ||||| ||||| ||||| || |||||||||||| | || || ||||||||| || | || ||||| ||||||||||| ||||||||||  ||   |||     | |  | || | || ||    |   ||| | | || |      |||||  || |    ||  ||     ||  ||  || |              
AAAGAATGTTTTTATTATGGGAGGAGGAGAAGGCTCTACTGCAAGAGAATTGCTCAGGCATAAGACTATAAACAAAGTTGTAATGTGTGACATAGATGAGgtaaaatctcctttg----tataaagttaactcttcattgtctatttatataccatggagctcattgacgagttaaaaacttaaaaattaaaatccatgtgcttgctcgagcag
















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|352791045|gb|FQ480038.1|FQ480038
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|352786447|gb|FQ479056.1|FQ479056
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351055343|gb|FQ441941.1|FQ441941
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|349822939|gb|FQ399918.1|FQ399918
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351036339|gb|FQ458714.1|FQ458714
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351039310|gb|FQ461177.1|FQ461177
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351049434|gb|FQ450035.1|FQ450035
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351051773|gb|FQ455187.1|FQ455187
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351035817|gb|FQ463662.1|FQ463662
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351038474|gb|FQ464340.1|FQ464340
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|349824845|gb|FQ414703.1|FQ414703
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351038444|gb|FQ464310.1|FQ464310
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351034444|gb|FQ463257.1|FQ463257
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351049225|gb|FQ449947.1|FQ449947
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351048095|gb|FQ441267.1|FQ441267
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351053780|gb|FQ441546.1|FQ441546
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGCGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351037593|gb|FQ462576.1|FQ462576
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351013942|gb|FQ434094.1|FQ434094
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351048233|gb|FQ442203.1|FQ442203
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTTGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|352793951|gb|FQ479193.1|FQ479193
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351030375|gb|FQ432313.1|FQ432313
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351032566|gb|FQ458931.1|FQ458931
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351048148|gb|FQ442118.1|FQ442118
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|161715874|gb|FC067453.1|FC067453
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351052302|gb|FQ455474.1|FQ455474
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351031893|gb|FQ460150.1|FQ460150
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351022726|gb|FQ428635.1|FQ428635
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|349815985|gb|FQ403626.1|FQ403626
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351042120|gb|FQ456330.1|FQ456330
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351031200|gb|FQ445027.1|FQ445027
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GGGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351039295|gb|FQ461162.1|FQ461162
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
EST: gi|351047673|gb|FQ455070.1|FQ455070
EST:     TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAG                         GAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC
genomic: TACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctcct ... catggagcagGAGGTGGTGGATTTCTGCAAATCATACTTGGTGGTAAACAGAGAAGCTTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGAGCATCTTCATCATGGGGGGAGGTGAAGGTTCCACTGCAAGAGAAATACTGAGACATAAGACTGTAGAGAAGGTTGTCATGTGTGACATTGATGAGgtaacctccttttttgctctttttatttcaatcctcgactttcttttctctccttttcatgcattgctgattctttaagatattttctatcattaatttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctcct