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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAGCATGGCAACCAAAATGGCAACTGTTGATAAAGCAGAAGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgtatataagatgtgtttcttatgtgtatttgcattaggctttaaattgtatatatagtttctatttttttattagttatgtatggggaaaatg...

Basic information

species Glycine max
transcript GLYMA09G33490.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G10540.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTAGCATGGCAACCAAAATGGCAACTGTTGATAAAGCAGAAGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgtatataagatgtgtttcttatgtgtatttgcattaggctttaaattgtatatatagtttctatttttttatt-agttatgtatggggaaaatg-----------------------------------------------------------------------------
|| |||||||| || |||||||| ||||| || |||||||| || || || |||||||||||||| ||||| |||||||| || || |||||||   | ||  | |||    |  ||||  |  |  |  | |   |||||| | ||          |  |||| | |||  | | | |||||       |                                                                              
GTAAGCATGGCCACGAAAATGGCTACTGTGGAGAAAGCAGATGAGCTACTAGAAAAGCTTCGCAGTGCTTCATGGGATCCGGCTGTTCAAGgtaacttcta-gtgagaaaaata-cttaaatcaacatatagtt--ctttaactagtgagctgttactgcatttctctatccaataaagtatgtaacggtttccctcatagcttttttgtatcggcctttcaaaccaaaatcatgattataattaattttacatgtgttatggacttag

upper sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv00s0211g00060.t01 (Vitis vinifera), 5'ss of exon 7
GTTAGCATGGCAACCAAAATGGCAACTGTTGATAAAGCAGAAGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgtatataagatgtgtttcttatgtgtatttgcattaggctttaaattgtatatatagtttctatttttttattagttatgtatgggg--aaaatg-------
|| || ||||||||||||||||| ||||||||||| |||||||| ||||| |||||||||||||| ||||| |||||| ||||||| |||||||    || | |  ||||     ||||  |     || ||  || || || | ||   |  |  |   || |||| |  |||   || |       ||| |       
GTAAGTATGGCAACCAAAATGGCTACTGTTGATAAGGCAGAAGAGCTTCTAGAAAAGCTTCGCAGTGCTTCATGGGATGCTGCAGTACAAGgta----gttttttggatgca---cttaactacgcctg-atatggattaaagtggtg-gtccacctatgatcttttaagcagtagggttttattttgaaacgactcata
















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|193554261|gb|FK513418.1|FK513418
EST:     CTGGGATGCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: CTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|193703380|gb|FK636494.1|FK636494
EST:     CTGGGATGCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: CTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|151410408|gb|EV280223.1|EV280223
EST:     AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|207728609|gb|GD707737.1|GD707737
EST:     GGGCTTCCTGGGATCCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: GGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|193726753|gb|FK656887.1|FK656887
EST:     CTGGGATGCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: CTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|192308087|gb|FK000415.1|FK000415
EST:     AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|298198857|gb|HO042220.1|HO042220
EST:     AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|6502048|gb|AW203421.1|AW203421
EST:     AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|254336791|gb|GR842970.1|GR842970
EST:     AGAACTTCTTGAAAAGCTTCGCAGGTCTTCCTGGGATGCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
EST: gi|193705878|gb|FK647084.1|FK647084
EST:     CTGGGATGCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAG
genomic: CTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAG
EST: gi|308098840|gb|HO760681.1|HO760681
EST:     AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAG                         ATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG
genomic: AGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgta ... ttccttgcagATATTGAAGACCTTAAGGAATTCTCCAAAAGTCAGGGAGCATTGGAAGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAGCATGGCAACCAAAATGGCAACTGTTGATAAAGCAGAAGAACTTCTTGAAAAGCTTCGCAGGGCTTCCTGGGATCCTGCAGTGCAAGgtattgtgtatataagatgtgtttcttatgtgtatttgcattaggctttaaattgtatatatagtttctatttttttattagttatgtatggggaaaatg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG