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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtagctgaatggttattactgaattaccattcttcaacttcattgggaattaatgataatagtaataatgtcttactaaatgaaaataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGGGCTCTTATGGGACTAATTCATGCTGGACAG

Basic information

species Glycine max
transcript GLYMA07G00330.1
intron # 13
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|58014627|gb|CX701369.1|CX701369
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
EST: gi|214008349|gb|DB986291.1|DB986291
EST:     TTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: TTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
EST: gi|9987711|gb|BE661819.1|BE661819
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
EST: gi|6914837|gb|AW396367.1|AW396367
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
EST: gi|4395927|gb|AI494924.1|AI494924
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
EST: gi|193468150|gb|FK431793.1|FK431793
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAA
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAA
EST: gi|209699719|gb|BW652091.1|BW652091
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
EST: gi|26060234|gb|CA803148.1|CA803148
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
EST: gi|209724228|gb|BW666593.1|BW666593
EST:     AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAG                         ATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG
genomic: AAAGAGAGGACGGTGGATGGGGAGAGAGTTATCTTTCAAGCCCAAAAAAGgtttgtagct ... aataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattgggaattaatgataatagtaataatgtcttactaaatgaaaataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGGGCTCTTATGGGACTAATTCATGCTGGACAG
                                  tactaaa  putative branch site (score: 1)
                ataatagtaataatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtagctgaatggttattactgaattaccattcttcaacttcattgggaattaatgataatagtaataatgtcttactaaatgaaaataatgcagATATATGTACCTCTAGAAGGAAGCCGATCAAATGTTGTACATACAGCATGGGCTCTTATGGGACTAATTCATGCTGGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA