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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcatcatggctcatttggtctgcaaggatggaactttttgaatattcaatgttttttccctgaaagattggaatttgatgttgttattgcaattggggtggtgggttgagattgcttttttttaatggttggtgcagTTTGTGAGCATGAGGAGGGAGAGTGGAAGGCTTACGGTTGGAGACTTGGCTTCCAAGATGGCAAGGTTGAAGGTTGTGGGAGAGAATCTGAGTGAAGAAG

Basic information

species Glycine max
transcript GLYMA08G45800.1
intron # 1
splice site 3'
intron type U2

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|209696875|gb|BW680499.1|BW680499
EST:     GGCTTCAGAACCAGTTCACTCAGGTGGAGCTTCGCAGCTTGAAATCCCAA                         TTTGTGAGCATGAGGAGGGAGAGTGGAAGGCTTACGGTTGGAGACTTGGCT
genomic: GGCTTCAGAACCAGTTCACTCAGGTGGAGCTTCGCAGCTTGAAATCCCAAgtaagttcat ... gttggtgcagTTTGTGAGCATGAGGAGGGAGAGTGGAAGGCTTACGGTTGGAGACTTGGCT
EST: gi|209700535|gb|BW667309.1|BW667309
EST:     GGCTTCAGAACCAGTTCACTCAGGTGGAGCTTCGCAGCTTGAAATCCCAA                         TTTGTGAGCATGAGGAGGGAGAGTGGAAGGCTTACGGTTGGAGACTTGGCT
genomic: GGCTTCAGAACCAGTTCACTCAGGTGGAGCTTCGCAGCTTGAAATCCCAAgtaagttcat ... gttggtgcagTTTGTGAGCATGAGGAGGGAGAGTGGAAGGCTTACGGTTGGAGACTTGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttattgcaattggggtggtgggttgagattgcttttttttaatggttggtgcagTTTGTGAGCATGAGGAGGGAGAGTGGAAGGCTTACGGTTGGAGACTTGGCTTCCAAGATGGCAAGGTTGAAGGTTGTGGGAGAGAATCTGAGTGAAGAAG
                                     ttttaat  putative branch site (score: 3)
                            attgcttttttttaat  TA-rich tract
















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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcatcatggctcatttggtctgcaaggatggaactttttgaatattcaatgttttttccctgaaagattggaatttgatgttgttattgcaattggggtggtgggttgagattgcttttttttaatggttggtgcagTTTGTGAGCATGAGGAGGGAGAGTGGAAGGCTTACGGTTGGAGACTTGGCTTCCAAGATGGCAAGGTTGAAGGTTGTGGGAGAGAATCTGAGTGAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG