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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCATGGGTCCTGATTTTCGAGTTTTGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtataccgaattctattccaacacattttcatactactgagttattgttctgcttagctaagatgattcagttataatgtctgcttcactatgga...

Basic information

species Glycine max
transcript GLYMA08G17810.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17810.3 (Glycine max), 5'ss of exon 6
lower sequence: AT1G16470.2 (Arabidopsis thaliana), 5'ss of exon 5
TGGCATGGGTCCTGATTTTCGAGTTTTGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtataccgaattctattccaacacattttcatactactgagttat-tgttctgctt--agctaagatgattcagttataatgtctgcttcactatgga
||||||||||||||||||||||||| | ||| |||| || |||||||| || ||||| ||||  ||| | || ||||||     |  |    ||| |||  | |  |  |   | ||||   | || || | || ||  | |||||     |   || | |                  
TGGCATGGGTCCTGATTTTCGAGTTCTTGTTAGGAAGAGTAGGAAACAGGCTGAGCAATATCTTCGTCTGTACAAAgta-atcctttctctctcttttctcaaatttgcttgaaatacttgctaatgtgatatggtttcacctaaggaagctttattgttacag---------------

upper sequence: GLYMA08G17810.3 (Glycine max), 5'ss of exon 6
lower sequence: Vv01s0011g01960.t01 (Vitis vinifera), 5'ss of exon 5
TGGCATGGGTCCTGATTTTCGAGTTTTGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtataccgaattctattccaacacattttcatactactgagttattgttctgcttagctaagatgattcagttataatgtctgcttcactatgga
 |||||||||||||||| ||||||||||||||| || || ||||| || || |||||||||||| |  ||||||| ||||  |||     ||| ||||    |   |     |     | | |  |  |      ||  |   ||| || | || ||| ||   | ||| ||||| 
CGGCATGGGTCCTGATTCTCGAGTTTTGGTTCGAAAGAGTAGGAAGCAGGCAGAGCAGTATCACAGGCTATATAAGgtatattattttttattttattttttccactggctgtttctataattcgtgatgtgatgtatgtttaatggttaatttctaaggttatcatcagtatggc
















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|12688055|gb|BG154391.1|BG154391
EST:     GGTTTCG-AAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGT
genomic: GGTT-CGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGT
EST: gi|15815476|gb|BI787751.1|BI787751
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|19268728|gb|BM884984.1|BM884984
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTGGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|4305924|gb|AI443831.1|AI443831
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAAGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|27425474|gb|CA936994.1|CA936994
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|6567102|gb|AW234729.1|AW234729
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAAGGAAGTTGCCGCCGTAATGCAN
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|37996790|gb|CF808379.1|CF808379
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGCATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|27424967|gb|CA936487.1|CA936487
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|15285795|gb|BI469686.1|BI469686
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|207767049|gb|GD737011.1|GD737011
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCNGGGAAAGTTGCCGCCGTAATGCA
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAA-GTTGCCGCCGTAATGCA
EST: gi|208333367|gb|GE126132.1|GE126132
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|12687912|gb|BG154308.1|BG154308
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGNAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|13311848|gb|BG405499.1|BG405499
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCTTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|298195959|gb|HO044350.1|HO044350
EST:     TGGTTTGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTG
EST: gi|207730604|gb|GD707491.1|GD707491
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCT
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCT
EST: gi|15000807|gb|BI321621.1|BI321621
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|207710725|gb|GD691717.1|GD691717
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|7690855|gb|AW758992.1|AW758992
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|13563115|gb|BG551335.1|BG551335
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|208330695|gb|GE132640.1|GE132640
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|298192268|gb|HO036350.1|HO036350
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|8283306|gb|BE020867.1|BE020867
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|27446035|gb|CA953158.1|CA953158
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|24135847|gb|BU926357.1|BU926357
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
EST: gi|17023069|gb|BM094103.1|BM094103
EST:     TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAA                         GAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG
genomic: TGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtata ... aaatgtgcagGAACCAATTCCTGTCACTCAACTTGTCAGGGAAGTTGCCGCCGTAATGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCATGGGTCCTGATTTTCGAGTTTTGGTTCGGAAAAGCAGGAAACAAGCCGAGCAGTATCACCGTTTATATAAAgtatggtataccgaattctattccaacacattttcatactactgagttattgttctgcttagctaagatgattcagttataatgtctgcttcactatgga

- - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG