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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACTCGAGAAACCTACTGATGACAGTGTTGAAGTAGCTGTTGGTTTTGTCACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattccctcaatttatgtggcaacaatgtgcttaggtttatatttgtaaatatgctaatgaattttccatttgtcttttttaggaagcatggtaa...

Basic information

species Glycine max
transcript GLYMA08G41440.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G41440.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv15s0045g01110.t01 (Vitis vinifera), 5'ss of exon 2
TTACTCGAGAAACCTACTGATGACAGTGTTGAAGTAGCTGTTGGTTTTGTCACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattccctcaatttatgtggcaacaatgtgcttaggtttatatttgtaaatatgctaa-tgaattttccatttgtcttttttaggaagcatggtaa--
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ATGTTGGAAAATCCTACTGATGACAGCGTTGAGGTAGCTGTTGGCTTTGTCAAGGAGTGTGGATCAATTCTTCAGGACCTTTCACCAAAGGGCTTGCATGgtgagtatgctgttagtt---gtagatgcttttcacataaagttgtttttcctattttcttaaatggaacatttgtgtgccactgtatgtttgttctattaat
















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|208071069|gb|GD871830.1|GD871830
EST:     CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATG                         GTATCTTTGAGCGTTTTCGTGGAATTCTTCATGAAGGAAGAAAATTGACAA
genomic: CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattc ... aattttgcagGTATCTTTGAGCGTTTTCGTGGAATTCTTCATGAAGGA-GAAA-TTGACAA
EST: gi|208123568|gb|GD924134.1|GD924134
EST:     CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATG                         GCATCTTTGAGCGTTTTCGTGGAATTCTTCATGAAGGAGAAATTGACAAAC
genomic: CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattc ... aattttgcagGTATCTTTGAGCGTTTTCGTGGAATTCTTCATGAAGGAGAAATTGACAAAC
EST: gi|207720555|gb|GD703166.1|GD703166
EST:     CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATG                         GTATCTTTGAGCGTTTTCGTGGAATTCTTCATGAAGGAGAAATTGACAAAC
genomic: CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattc ... aattttgcagGTATCTTTGAGCGTTTTCGTGGAATTCTTCATGAAGGAGAAATTGACAAAC
EST: gi|193456699|gb|FK423529.1|FK423529
EST:     CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATG                         GTATCTTTGAGCGTT
genomic: CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattc ... aattttgcagGTATCTTTGAGCGTT
EST: gi|208287007|gb|GE087037.1|GE087037
EST:     CACCGAATGTGGTTCAATACTGCTGGACCTCTCACCTAAAGGCCTTCATG                         GTATCTTTAAGCGTTTTCGTGGAATTCTTCATGAAGGAGAAATTGA
genomic: CACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattc ... aattttgcagGTATCTTTGAGCGTTTTCGTGGAATTCTTCATGAAGGAGAAATTGA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTACTCGAGAAACCTACTGATGACAGTGTTGAAGTAGCTGTTGGTTTTGTCACCGAATGTGGTTCAATACTGCAGGACCTCTCACCTAAAGGCCTTCATGgtgagtattccctcaatttatgtggcaacaatgtgcttaggtttatatttgtaaatatgctaatgaattttccatttgtcttttttaggaagcatggtaa

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