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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctatagtgatgacattcctatctcatgcttgctttggcagtgtcaaattgccaatatacatgttagatgccaaagaccattatatctctgatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGATTACAGAGGAGCAGCTGAAGGCATCTGCTGCACAACAGCAGGGGCAAAC

Basic information

species Glycine max
transcript GLYMA20G30120.1
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|31458767|gb|CD400795.1|CD400795
EST:     ACTTCATCATCCACTGTTGACCCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
genomic: ACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|192311913|gb|FK004222.1|FK004222
EST:     TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|15204816|gb|BI427584.1|BI427584
EST:     TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|151402645|gb|EV272458.1|EV272458
EST:     TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|192334065|gb|FK026222.1|FK026222
EST:     TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCC-A                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|19348858|gb|BM893390.1|BM893390
EST:     TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGANGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|192311912|gb|FK004221.1|FK004221
EST:     TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|192334066|gb|FK026223.1|FK026223
EST:     TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGA-CCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTTTGAGGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
EST: gi|298179287|gb|HO027758.1|HO027758
EST:     TTCCAATGTACGTAAAACCACACCAACTTCATCATCCACTGTTGACCCCA                         ATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA
genomic: TTCCAATGTACGTAATACCACACCAACTTCATCATCCACTGTTGACCCCAgtgagtaatc ... gatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattgccaatatacatgttagatgccaaagaccattatatctctgatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGATTACAGAGGAGCAGCTGAAGGCATCTGCTGCACAACAGCAGGGGCAAAC
                                         ctctgat  putative branch site (score: 4)
        aatatacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctatagtgatgacattcctatctcatgcttgctttggcagtgtcaaattgccaatatacatgttagatgccaaagaccattatatctctgatattgcagATGGCACGCTAGACCCTACTAAAGCATACAGCTCTGAGGAGTATCTTAAGATTACAGAGGAGCAGCTGAAGGCATCTGCTGCACAACAGCAGGGGCAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - -agtgatg
- - - - - - -cattcct
- - - - - - - - - - - -tcatgct
- - - - - - - - - - - - - - - -gctttgg
- - - - - - - - - - - - - - - - - - - cagtgtc
- - - - - - - - - - - - - - - - - - - - - - - - -tgccaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgcca