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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagacttcaatctaataataataactgcttgtcttgaagtatggatgttcttttcaaagcattgatgctataagctatatatttgtattatttgcaagattctcttctgctttatgtgatgtgatcatgtgaatcggttctgatattgtggatttgtggtattttatttgctttagACTTGAGGCTGCAACTGGTGCTTGCTATGGAATTTTAGCAAAGAATAATTCTCTGGGCTCGAAGTATCCATCTGAAGAAAACCTCCTACAATGCTTGAGA

Basic information

species Glycine max
transcript GLYMA20G35670.1
intron # 4
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|208226685|gb|GE021882.1|GE021882
EST:     GGTTGTTAATAGCCAATGCAATCCCTCAAAACTGGAGTTTGTGAGTTCAG                         ACTTGAGGCTGCAACTGGTGCTTGCTATGGAATTTTAGCAAAGAATAATTC
genomic: GGTTGTTAATAGCCAATGCAAT-CCTC-AAACTGGAGTTTATGAGTTCAGgttagacttc ... tttgctttagACTTGAGGCTGCAACTGGTGCTTGCTATGGAATTTTAGCAAAGAATAATTC
EST: gi|193338733|gb|FK302190.1|FK302190
EST:     ATGGTTGTTAATAGCCAATGCAATCCTCAAACTGGAGTTTATGAGTTCAG                         ACTTGAGGCTGCAACTGGTGCTTGCTATGGAATTTTAG
genomic: ATGGTTGTTAATAGCCAATGCAATCCTCAAACTGGAGTTTATGAGTTCAGgttagacttc ... tttgctttagACTTGAGGCTGCAACTGGTGCTTGCTATGGAATTTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatcatgtgaatcggttctgatattgtggatttgtggtattttatttgctttagACTTGAGGCTGCAACTGGTGCTTGCTATGGAATTTTAGCAAAGAATAATTCTCTGGGCTCGAAGTATCCATCTGAAGAAAACCTCCTACAATGCTTGAGA
                ttctgat  putative branch site (score: 3)
                                        ttttattt  putative PPT
                                      tattttatttgcttta  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagacttcaatctaataataataactgcttgtcttgaagtatggatgttcttttcaaagcattgatgctataagctatatatttgtattatttgcaagattctcttctgctttatgtgatgtgatcatgtgaatcggttctgatattgtggatttgtggtattttatttgctttagACTTGAGGCTGCAACTGGTGCTTGCTATGGAATTTTAGCAAAGAATAATTCTCTGGGCTCGAAGTATCCATCTGAAGAAAACCTCCTACAATGCTTGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA