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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATCCACCACTTCCTAATGGTCATAGACTTTTTCTCCATGACATTAGGAGGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATTgtaagttaatgaagccctattctacatttcaccttctaatatagaattgagctaagttgtgatgcctgagaagtcacttaattgaaagcattttggtgct...

Basic information

species Glycine max
transcript GLYMA05G37740.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G37740.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G009070_T01 (Zea mays), 5'ss of exon 3
TTATCCACCACTTCCTAATGGTCATAGACTTTTTCTCCATGACATTAGGAGGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATTgtaagttaatgaagccctattctacatttcaccttctaatatagaattgagct-aagttgtgatgcctgagaagtcacttaattgaaagcattttggtgct--
||| ||||| ||||| ||||| |||||||| || || ||||| ||||| || || || || |||||||| ||||||||||| ||  | || ||| || | |||||||  |      ||||  ||      | | | |  | |||   ||||||   |     ||  |||||  || |   ||||    | | |       |  
TTACCCACCCCTTCCAAATGGGCATAGACTATTCCTACATGATATTAGAAGAGTTGCAGTTCGAGCTGCTGTTGCAATGGGTGAACAAGGCGATGTGGTCgtaagtttcttg---tctatgttatcaggaagccttttctgtagttctgagcttgtgaccatataactgagttgtaaagaaatttttggaactcatagattgc
















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|15813761|gb|BI786036.1|BI786036
EST:     GGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATT                         GTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG
genomic: GGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATTgtaagttaat ... catggtgcagGTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG
EST: gi|51863815|gb|CV128296.1|CV128296
EST:     GGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGGTT                         GTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG
genomic: GGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATTgtaagttaat ... catggtgcagGTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG
EST: gi|31463275|gb|CD405303.1|CD405303
EST:     GGGTAGCTGTGCGAGCTGCAGTTGCCATGGGAGAGGAGGGTGATATGGTT                         GTGGTTGCTGGCCAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG
genomic: GGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATTgtaagttaat ... catggtgcagGTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG
EST: gi|22928303|gb|BU545442.1|BU545442
EST:     GGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATT                         GTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG
genomic: GGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATTgtaagttaat ... catggtgcagGTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATCCACCACTTCCTAATGGTCATAGACTTTTTCTCCATGACATTAGGAGGGTAGCTGTGCGAGCTGCAGTTGCAATGGGAGAGGAGGGTGATATGATTgtaagttaatgaagccctattctacatttcaccttctaatatagaattgagctaagttgtgatgcctgagaagtcacttaattgaaagcattttggtgct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG