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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatcaaatgttttcctcttcaatgcccttttgtaacttgacaaggctggttattggcaattaagaccacacctgcaacaaaataaataaaagaaaaacacagaattgtcatgtgttacccatgaaaaagaataacatgtttatttcgtttttgtcttgtcgcagGTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTGTTATCTTCGAGCAAGTATGAAGAAAAGGGCCTTTCCGTGGTTAGAGAGC

Basic information

species Glycine max
transcript GLYMA05G37740.1
intron # 5
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|51863815|gb|CV128296.1|CV128296
EST:     GTTGATGAGCTTCACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCG                         GTTACCAGAGAGCCATTGATACAAAAGGCTGTTGTGATAAATATTGGATTG
genomic: GTTGATGAGCTTCACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCGgtaatatcaa ... cttgtcgcagGTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTG
EST: gi|17021509|gb|BM092543.1|BM092543
EST:     ACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCG                         GTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTG
genomic: ACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCGgtaatatcaa ... cttgtcgcagGTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTG
EST: gi|31463275|gb|CD405303.1|CD405303
EST:     GTTGATGAGCTTCACCCAGCTGGAATAGATACAAGTGAATTTCCATGGCG                         GTTACCAGAGAGCCATTGATACCAAA-GGCTGTTGTGATAAATATTGGATT
genomic: GTTGATGAGCTTCACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCGgtaatatcaa ... cttgtcgcagGTTACCAGAGAGCCATTGATAC-AAACGGCTGTTGTGATAAATATTGGATT
EST: gi|22928303|gb|BU545442.1|BU545442
EST:     GTTGATGAGCTTCACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCG                         GTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTG
genomic: GTTGATGAGCTTCACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCGgtaatatcaa ... cttgtcgcagGTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgttacccatgaaaaagaataacatgtttatttcgtttttgtcttgtcgcagGTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTGTTATCTTCGAGCAAGTATGAAGAAAAGGGCCTTTCCGTGGTTAGAGAGC
                   gaataac  putative branch site (score: 2)
                                 tttcgtttttgtctt  putative PPT
              aaaaagaataacatgt  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatatcaaatgttttcctcttcaatgcccttttgtaacttgacaaggctggttattggcaattaagaccacacctgcaacaaaataaataaaagaaaaacacagaattgtcatgtgttacccatgaaaaagaataacatgtttatttcgtttttgtcttgtcgcagGTTACCAGAGAGCCATTGATACAAACGGCTGTTGTGATAAATATTGGATTGTTATCTTCGAGCAAGTATGAAGAAAAGGGCCTTTCCGTGGTTAGAGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA