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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTAGGAACGTGGATAAATTGATTCTCTATTTTGGTGAAGATCCAGCTCGTTGCCCATTTGAGCAAGgtgtgtgactgtttaaacttcaaatatctctttctggatggttgatttaagtgagcaccctctatttggattatgataattatatttttagctttgtgct...

Basic information

species Glycine max
transcript GLYMA02G36440.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G36440.1 (Glycine max), 5'ss of exon 21
lower sequence: Vv11s0016g00160.t01 (Vitis vinifera), 5'ss of exon 16
GGTAGGAACGTGGATAAATTGATTCTCTATTTTGGTGAAGATCCAGCTCGTTGCCCATTTGAGCAAGgtgtgtgactgtttaaacttcaaatatctctttctggatggttgatttaagtgagcaccctctatttggattatgataattatatttttagctttgtgct
|||||||| ||||||  | ||||||| ||||||||||||||||||||||| |||||||||   | ||||        ||    |     | | | |  |  |  |    |                                                         
GGTAGGAATGTGGATGCACTGATTCTTTATTTTGGTGAAGATCCAGCTCGCTGCCCATTTTGACCAGgtactgtttggtagccatgatcagtttatactgttacaaatctannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn
















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|58023146|gb|CX709887.1|CX709887
EST:     ATTGATTCTCTATTTTGGTGAAGATCCAGCTCGTTGCCCATTTGAGCAAG                         TTGTGTCAACTTTGCTCAACTTTACTAGGATGTTCAACAAAGCCCATGAAG
genomic: ATTGATTCTCTATTTTGGTGAAGATCCAGCTCGTTGCCCATTTGAGCAAGgtgtgtgact ... ttttctgcagTTGTGTCAACTTTGCTCAACTTTACTAGGATGTTCAACAAAGCCCATGAAG
EST: gi|57574575|gb|CX547550.1|CX547550
EST:     ATTGATTCTCTATTTTGGTGAAGATCCAGCTCGTTGCCCATTTGAGCAAG                         TTGTGTCAACTTTGCTCAACTTTACTAGGATGTTCAACAAAGCCCATGAAG
genomic: ATTGATTCTCTATTTTGGTGAAGATCCAGCTCGTTGCCCATTTGAGCAAGgtgtgtgact ... ttttctgcagTTGTGTCAACTTTGCTCAACTTTACTAGGATGTTCAACAAAGCCCATGAAG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTAGGAACGTGGATAAATTGATTCTCTATTTTGGTGAAGATCCAGCTCGTTGCCCATTTGAGCAAGgtgtgtgactgtttaaacttcaaatatctctttctggatggttgatttaagtgagcaccctctatttggattatgataattatatttttagctttgtgct

- - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caccctc