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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactccttgcatctttaagtaaaatttccttttgggtaataaattaataattcttttgtttgaatagttaaaagagcattgaacataattcttacca...

Basic information

species Glycine max
transcript GLYMA07G05130.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05130.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G72330.2 (Arabidopsis thaliana), 5'ss of exon 11
TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactccttgcatctttaagtaaaatttcctt----ttgggtaataaatta------ataattct-----tttgtttgaatagttaaaagagcattgaacataattcttacca-----
| | || || || ||||| ||||| ||| |||| ||||| || ||||| ||||| |||||||||||||||||||| ||| | |||||||| ||||||||||| |   ||| |     |  | |    ||||  |    |   | || | ||||      | || |||     | | |||||  ||      ||  | | |  || | || |||       
TTCTGATGTAAGAGAACAGATATACAAAATGGCTTCTGTGAATCTTTGTTCTAACATCTCTGGTCAAATTCTTGCTAGCCTTGTCATGAGCCCACCCAAGgtaacaccctagttctctctaatcggttttcgctaagttcttgcaacagattatgactaaaaagtctaatattgtatttgatcagcctggtgatgactca-tatgactcatacatggcag

upper sequence: GLYMA07G05130.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G17290.1 (Arabidopsis thaliana), 5'ss of exon 11
TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactccttgcatctttaagtaaaatttccttttgggtaataaattaataattcttttgtttgaa-tagttaaaagagcattgaacataat---tcttacca-----------
| | || || || || || ||||| ||| |||| ||||| || ||||| || || |||||||||||||||||||| ||| |  ||||||| |||||||||||  |       ||||| || | |   | || |      | ||  | |    |    || | ||| | | |   |  ||  ||||| | ||||   | |||  |           
TTCTGATGTAAGAGAGCAGATATACAAAATGGCTTCTGTGAATCTTTGTTCCAACATCTCTGGTCAAATTCTTGCTAGCCTCATCATGAGCCCACCCAAGgtataaa----acatctatatg-actttatcatcacaattgattcagtttccacctgttggcttggacttgcacatcgataattgaccttaatagcttttattaaatttgatcag

upper sequence: GLYMA07G05130.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G72330.3 (Arabidopsis thaliana), 5'ss of exon 11
TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactccttgcatctttaagtaaaatttccttttgggtaataaattaataattcttttgtttgaatagttaaaagagcattgaacataattcttacca
| | || || || ||||| ||||| ||| |||| ||||| || ||||| ||||| |||||||||||||||||||| ||| | |||||||| ||||||||||| ||| || |   ||| |        ||| |  |  | |  |  |  |       || ||  | || |||  ||     |||| |  | ||        
TTCTGATGTAAGAGAACAGATATACAAAATGGCTTCTGTGAATCTTTGTTCTAACATCTCTGGTCAAATTCTTGCTAGCCTTGTCATGAGCCCACCCAAGgt-aacaccctagttctctctaatcggttttcgctaagttcttgcaacaga-----ttatgactaaaaagtctaa----tattgtatttgatcag-----

upper sequence: GLYMA07G05130.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv09s0002g00340.t01 (Vitis vinifera), 5'ss of exon 12
TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactccttgca-tctttaagtaa--aatttccttttgggtaataaattaataattcttttgtttgaatagttaaaagagcattgaacataattcttacca
 || || ||| ||||||| ||||| |||||||||||||| || ||||| ||||||||| |||||||||||||||||||| | || ||||| |||||||||||||| |  || |  ||| ||| | |  ||  || ||     |  |    |  |  |   ||| |||  ||| |||       |        |   |  |   
CGCTGATGTGCGGGAACAGATATACAAAGTGGCATCTGTGAATCTTTGTTCTAATATCACTGGTCAAATTCTTGCAAGCCTTGTGATGAGCCCACCCAAGgttaatttttttccctctataaattagcaaactctttgcttctttttttctttttgtctatttatttatatatttacttatttaccatttggagaccaga---

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|254331229|gb|GR845808.1|GR845808
EST:     AATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: AATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254347612|gb|GR853861.1|GR853861
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|37996505|gb|CF808094.1|CF808094
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGACTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254328729|gb|GR833101.1|GR833101
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|58020627|gb|CX707369.1|CX707369
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254316660|gb|GR828197.1|GR828197
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254316661|gb|GR828198.1|GR828198
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|5820415|gb|AI988621.1|AI988621
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|21677454|gb|BQ629805.1|BQ629805
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|21887326|gb|BQ740539.1|BQ740539
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|193495767|gb|FK461105.1|FK461105
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|14999909|gb|BI320723.1|BI320723
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|8284869|gb|BE022428.1|BE022428
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|21888381|gb|BQ741594.1|BQ741594
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|15200437|gb|BI424349.1|BI424349
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|18733914|gb|BM527883.1|BM527883
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254347613|gb|GR853862.1|GR853862
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|17021823|gb|BM092857.1|BM092857
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254337075|gb|GR844965.1|GR844965
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254331230|gb|GR845809.1|GR845809
EST:     TGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCCATTCATGGCTGAGAAGGAGAATATTTT
genomic: TGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACT-CATTCATGGCTGAGAAGGAGAATATTTT
EST: gi|21887295|gb|BQ740508.1|BQ740508
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|193535945|gb|FK491285.1|FK491285
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|254328730|gb|GR833102.1|GR833102
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|31466212|gb|CD408240.1|CD408240
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGTGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|16343213|gb|BI968808.1|BI968808
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|6566158|gb|AW233795.1|AW233795
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATANTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
EST: gi|58024010|gb|CX710751.1|CX710751
EST:     CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAG                         GTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG
genomic: CTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactcct ... atgtctgcagGTTGGAGATGAGTCCTATGACTCATTCATGGCTGAGAAGGAGAATATTTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAGAAGTGAGGGAACAAATATATAAAGTGGCATCTGTCAACCTTTGCTCTAATATCTCTGGTCAAATTCTTGCAAGCTTGGTCATGAGTCCACCCAAGgttaactccttgcatctttaagtaaaatttccttttgggtaataaattaataattcttttgtttgaatagttaaaagagcattgaacataattcttacca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT