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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGCTTGGATTCGAGTGTGGGTCAAGAAAGGAGGAATGATCATCTTACCTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttgcatatttacaagtagtacctgcactgctacttttgtctgttgctaatagaaaaacattatatccttgtacttctattcctctggcccatt...

Basic information

species Glycine max
transcript GLYMA10G38940.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38940.3 (Glycine max), 5'ss of exon 5
lower sequence: AT2G26400.1 (Arabidopsis thaliana), 5'ss of exon 5
TGATGCTTGGATTCGAGTGTGGGTCAAGAAAGGAGGAATGATCATCTTACCTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttgcatatttacaagtagtacctgcactgctacttttgtctgttgctaatagaaaaacattatatccttgtac--ttctattcctctggcccatt------
||||  ||||||| |||| ||||| ||||| |||||  ||||  |||| ||||||||||| ||||||||||| ||  | ||   |  |||||| || |||||      |     | | | |||  |   | || | |||  | ||   ||| | | ||  | |   ||   | |||  |   ||  | |  |||     |||      
TGATATTTGGATTAGAGTATGGGTAAAGAAGGGAGGTTTGATAGTCTTCCCTGCTGGAATATATCATCGCTTCACCGTGGACTCGGACAACTATATGAAGgttcaatcttagcttcttctagttattaattca-tacta--tatgaaggtt-caagtaatatatttttggttgcttagaaaattggaattttcttatatattgaacag

upper sequence: GLYMA10G38940.3 (Glycine max), 5'ss of exon 5
lower sequence: AT4G14710.1 (Arabidopsis thaliana), 5'ss of exon 5
TGATGCTTGGATTCGAGTGTGGGTCAAGAAAGGAGGAATGATCATCTTACCTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattg-gttgcatatttacaagtagtacctgcactgctacttttgtctgttgctaatagaaaaacattatatccttgtacttctattcctctggcccatt
||| ||||||||| |||| ||||| ||||| ||||| |||||  |||||||||||||||| ||||||||||| ||  ||||      |||||| || |||||     |||   |  ||   ||| ||   | ||       | |  |  |||| | | | ||    | ||| |  |||  |                    
TGAAGCTTGGATTAGAGTATGGGTAAAGAAGGGAGGTATGATAGTCTTACCTGCTGGAATATATCATCGCTTCACCGTAGACTCAGACAACTATATCAAGgtgcaatgttagcttcttcagagtggttaattcatcatatatatatttggttgattagaaaattgaaatatcttgttgagcag------------------

upper sequence: GLYMA10G38940.3 (Glycine max), 5'ss of exon 5
lower sequence: AT4G14710.3 (Arabidopsis thaliana), 5'ss of exon 5
TGATGCTTGGATTCGAGTGTGGGTCAAGAAAGGAGGAATGATCATCTTACCTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattg-gttgcatatttacaagtagtacctgcactgctacttttgtctgttgctaatagaaaaacattatatccttgtacttctattcctctggcccatt
||| ||||||||| |||| ||||| ||||| ||||| |||||  |||||||||||||||| ||||||||||| ||  ||||      |||||| || |||||     |||   |  ||   ||| ||   | ||    ||  | | | || |   | |||||||     ||||| |  |                      
TGAAGCTTGGATTAGAGTATGGGTAAAGAAGGGAGGTATGATAGTCTTACCTGCTGGAATATATCATCGCTTCACCGTAGACTCAGACAACTATATCAAGgtgcaatgttagcttcttcagagtggttaattcatca-tatatatatttggt-tgattagaaaattgaaatatcttgttgag-------------------

upper sequence: GLYMA10G38940.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv05s0020g04080.t01 (Vitis vinifera), 5'ss of exon 5
TGATGCTTGGATTCGAGTGTGGGTCAAGAAAGGAGGAATGATCATCTTACCTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgta----ttggttgcatatttacaagtagtacctgcactgctacttttgtctgttgctaatagaaaaacattatatccttgtacttctattcctctggcccatt
|||  ||||||| || |||||| | |||||||||||||||||  | |||||||||||||||||||| || || ||||| |||  || ||||||||| ||||||    |    | |||  |||  |     |  |  | || |   |||| |||     ||| | || | || ||| |  |     |       | |   | |  
TGACTCTTGGATCCGTGTGTGGCTAAAGAAAGGAGGAATGATTGTATTACCTGCTGGAATTTATCACCGGTTCACACTGGATTCGAACAACTACATCAAGgtagctttacactccatgcttatgaaacacaaat-tagtggtttgtttgcctgccaagaatggcaata-ataataccaataccactaggactatatattcta--

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|13252055|gb|BG362958.1|BG362958
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|120493118|gb|EH221285.1|EH221285
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|19270789|gb|BM887045.1|BM887045
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|15813895|gb|BI786170.1|BI786170
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|22522682|gb|BU081493.1|BU081493
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|209708652|gb|BW678829.1|BW678829
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|192318385|gb|FK006505.1|FK006505
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|7591166|gb|AW706904.1|AW706904
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTAGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|7042440|gb|AW472334.1|AW472334
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAT                         GCTATGCGTTATTTTGTTGGTGAGCCAGGTTTG-ACTCCACACAAT
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAG-TTTGGACTCCACACAAT
EST: gi|7041921|gb|AW471815.1|AW471815
EST:     CTGCTGGAATTTATCATCGCTGTACACTAGATGAGAGCAACTACATTAAG                         GCTGTGCGTTGTTGTGTTGGTGAGCCAGGTTGGACTCCACACAATCGTGCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|9902326|gb|BE611294.1|BE611294
EST:     CTGCTGGAATTTATCATCGGTCTACACTAGATGAGAGCCACTACATTAAG                         GCTTTGCAGTTATTT-GTTGGTGAGCCAGTTTGTACTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGC-GTTTTTTTGTTGGTGAGCCAGTTTGGACTCCA
EST: gi|27426192|gb|CA937712.1|CA937712
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAAT
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAAT
EST: gi|254339056|gb|GR847773.1|GR847773
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|193337272|gb|FK303324.1|FK303324
EST:     TTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCG-TTTTTTGTTGGTGAGTCAGTTTGGACTCCACACAATCGTCCA
genomic: -TGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|207798267|gb|GD769503.1|GD769503
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGTTTTTT-GTTGGTGAGCCAGTTTG
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTG
EST: gi|7283509|gb|AW596116.1|AW596116
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGTNGTTTTGTTGGTGAGCCAATTTTGACTCCACACAATCCTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|15285900|gb|BI469791.1|BI469791
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|120497212|gb|EH225379.1|EH225379
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|23726129|gb|BU761046.1|BU761046
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGNNNNNNNGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
EST: gi|8282521|gb|BE020012.1|BE020012
EST:     CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAG                         GCTTTGCGTTNTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA
genomic: CTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttg ... tgatgtgcagGCTTTGCGTTTTTTTGTTGGTGAGCCAGTTTGGACTCCACACAATCGTCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGCTTGGATTCGAGTGTGGGTCAAGAAAGGAGGAATGATCATCTTACCTGCTGGAATTTATCATCGCTTTACACTAGATGAGAGCAACTACATTAAGgtattggttgcatatttacaagtagtacctgcactgctacttttgtctgttgctaatagaaaaacattatatccttgtacttctattcctctggcccatt

- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA