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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtaatcagtgaaataatctccattctcattcttttgttttctttcaaacttccaatgctgcctgatctttacttagttttttccccattgtttttagGTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAACAAAGCAGATTCTG

Basic information

species Glycine max
transcript GLYMA11G19220.1
intron # 6
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|207779467|gb|GD754609.1|GD754609
EST:     GGCAGAAAAGCTGGTTGCAGCCAAGATTCATCCTATGACAATAATATCAG                         GTTTCCGAATGGCAGCAGAGTGTGCCCGTAATGCTTTGTTGGAGAAGGTTG
genomic: GGCAGAAAAGCTGGTTGCAGCCAAGATTCATCCTATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|254325804|gb|GR838685.1|GR838685
EST:     GGCAGAAAAGCTGGTTGCAGCCAAGATTCATCCTATGACAATAATATCAG                         GTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: GGCAGAAAAGCTGGTTGCAGCCAAGATTCATCCTATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|298183591|gb|HO028804.1|HO028804
EST:     GGCAGAAAAGCTGGTTGCAGCCAAGATTCATCCTATGACAATAATATCAG                         GTTTCCGAATGGCAGCAGAGCGTGCTCGTAATGCTTTGTTGGAG
genomic: GGCAGAAAAGCTGGTTGCAGCCAAGATTCATCCTATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaaacttccaatgctgcctgatctttacttagttttttccccattgtttttagGTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAACAAAGCAGATTCTG
                 gcctgat  putative branch site (score: 4)
                                  ttttttccccattgtt  putative PPT
                         tttacttagtttttt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaagtaatcagtgaaataatctccattctcattcttttgttttctttcaaacttccaatgctgcctgatctttacttagttttttccccattgtttttagGTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAACAAAGCAGATTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - -cattctc
- - - - - - - - - - - - - - - - - - - - - - - tcaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcctga