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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgaaacttttatattcatgaaacagttcttgatctttcttatttattagttgtaaaactggaagtattatgataagatctaaatgccttactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCCGCAGCTCCATGAGGCTAGTATCATTCCATAGTCTTTTCCAGTTGTGGTG

Basic information

species Glycine max
transcript GLYMA09G01270.2
intron # 12
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|208162485|gb|GD962292.1|GD962292
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCGAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193676085|gb|FK620071.1|FK620071
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193422949|gb|FK388070.1|FK388070
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|19268967|gb|BM885223.1|BM885223
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|208160460|gb|GD964650.1|GD964650
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193575951|gb|FK532096.1|FK532096
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|208268587|gb|GE072074.1|GE072074
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193387075|gb|FK352478.1|FK352478
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193375472|gb|FK341655.1|FK341655
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|15813259|gb|BI785534.1|BI785534
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193487219|gb|FK450912.1|FK450912
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193436682|gb|FK400869.1|FK400869
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|193341566|gb|FK308878.1|FK308878
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
EST: gi|208050468|gb|GD845551.1|GD845551
EST:     GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAG                         GGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC
genomic: GGAAATTTCTTGAAGATGGAGACGAAGTCATCTTAACTGGATATTGCAAGgtaacaatca ... tactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattagttgtaaaactggaagtattatgataagatctaaatgccttactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCCGCAGCTCCATGAGGCTAGTATCATTCCATAGTCTTTTCCAGTTGTGGTG
                                         gccttac  putative branch site (score: 3)
                                          ccttacttt  CT-rich tract
                  aagtattatgataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attgaaacttttatattcatgaaacagttcttgatctttcttatttattagttgtaaaactggaagtattatgataagatctaaatgccttactttgcagGGAAATGGTTACTCTGTTGGGTTTGGTACTTGCTCAGGCAAGATTGTACCCGCAGCTCCATGAGGCTAGTATCATTCCATAGTCTTTTCCAGTTGTGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - -catgaaa
- - - - - - - - - - - - - gttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgcct