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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatatttctttgatcaccttatagcattcatgcatgccaagagagatatattatttgttcatttgatgaacctattttacccctatcctttgttttcagAGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGACTTGCCTCCAGAGGGAGTGGATCTGAGTGAGGTACCCCCAGCTGAAGATT

Basic information

species Glycine max
transcript GLYMA15G14550.1
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|18038939|gb|BM307233.1|BM307233
EST:     CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAG                         AGTGGATTAACTCTCAGCGGTGAAGGAATCTTAGGACCACTAACTTCAGAC
genomic: CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattt ... ttgttttcagAGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGAC
EST: gi|18038907|gb|BM307201.1|BM307201
EST:     CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAG                         AGTGGATTAACTCTCAGCGGTGAAGGAATCTTANGACCACTAACTTCAGAC
genomic: CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattt ... ttgttttcagAGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGAC
EST: gi|18732823|gb|BM527270.1|BM527270
EST:     CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAG                         AGTGGATTAACTCTCAG
genomic: CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattt ... ttgttttcagAGTGGATTAACTCTCAG
EST: gi|7234320|gb|AW569659.1|AW569659
EST:     CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAG                         AGTGGATTAACTCTCAGTGGTGAAGGAATCTTANGACCACTAGCTTCAGAC
genomic: CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattt ... ttgttttcagAGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGAC
EST: gi|15001176|gb|BI321990.1|BI321990
EST:     CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAG                         AGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGAC
genomic: CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattt ... ttgttttcagAGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatattatttgttcatttgatgaacctattttacccctatcctttgttttcagAGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGACTTGCCTCCAGAGGGAGTGGATCTGAGTGAGGTACCCCCAGCTGAAGATT
                atttgat  putative branch site (score: 5)
                          cctattttacccctat  putative PPT
     attatttgttcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atatatttctttgatcaccttatagcattcatgcatgccaagagagatatattatttgttcatttgatgaacctattttacccctatcctttgttttcagAGTGGATTAACTCTCAGTGGTGAAGGAATCTTAGGACCACTAGCTTCAGACTTGCCTCCAGAGGGAGTGGATCTGAGTGAGGTACCCCCAGCTGAAGATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - tcacctt
- - - - - - - - - - - - gcattca
- - - - - - - - - - - - - - - - -catgcca