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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACATGCTGAGAAGTATGTTAGAAGGGGTAGATTAGACTGGCCTGAGGGTGCAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttgattatttgctttctgattttaactatataaagcaatttgaatggtttatattgactttagtcgacattttcccctcccaaatatatgtag

Basic information

species Glycine max
transcript GLYMA05G02740.3
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G02740.2 (Glycine max), 5'ss of exon 9
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 11
ACATGCTGAGAAGTATGTTAGAAGGGGTAGATTAGACTGGCCTGAGGGTGCAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggt-----ttgatt-atttgcttt-ctgattttaa-ctatataaagcaatttgaatggtttatattg--actttagtcgacattttcccctcccaaatatatgtag------------
|||||| |||||||||||  ||||||||||||| |||||||| || ||||| || || ||||| ||||||||||||||  | ||||| ||| | ||||||||| ||     |||||| ||||| ||   | ||   ||  | | | |     | | || | | | ||||   | ||| ||| |  | ||   |      ||||||| |             
ACATGCAGAGAAGTATGTACGAAGGGGTAGATTGGACTGGCCAGAAGGTGCGACTTCAAGGGAAAGTATCAAAGCTGTTCTCAAGCTACCTCGCCTTCAGgtttgtgtacattgattgatttggttcattcataccaagttttgtgagcttgtctaaaggttctttatttgtattttggtc-atgtgtttgacaaatctatatatgcaccttttttggcag
















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|208243789|gb|GE040714.1|GE040714
EST:     CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCT
genomic: CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCT
EST: gi|254324743|gb|GR834168.1|GR834168
EST:     CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|207786906|gb|GD755379.1|GD755379
EST:     TCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: TCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|193542820|gb|FK504141.1|FK504141
EST:     AACCTCGAGGGAGGAATATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: AACCTCGAGGGA-GAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|213597528|gb|DB964433.1|DB964433
EST:     AGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: AGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|254323902|gb|GR840435.1|GR840435
EST:     CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|193511380|gb|FK470833.1|FK470833
EST:     AACCTC-AGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: AACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|207792096|gb|GD766550.1|GD766550
EST:     CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|193532781|gb|FK488471.1|FK488471
EST:     CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|193694771|gb|FK632911.1|FK632911
EST:     CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACNTCTC
genomic: CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
EST: gi|58016463|gb|CX703205.1|CX703205
EST:     CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAG                         AACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC
genomic: CAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttga ... atatatgtagAACCTTGTAATGCAGCATGTAGATCATTCAGCTGGCGATCTCATACATCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACATGCTGAGAAGTATGTTAGAAGGGGTAGATTAGACTGGCCTGAGGGTGCAACCTCGAGGGAGAGTATCAAAGCTGTAATGAAGCTTCCTAGGCTTCAGgttggtttgattatttgctttctgattttaactatataaagcaatttgaatggtttatattgactttagtcgacattttcccctcccaaatatatgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC