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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgtcagttatcctggacccatgtttggttaggttgttctgccttgaccggttgttacatgtttgatattttgatcattacgtcttaatacgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT

Basic information

species Glycine max
transcript GLYMA01G02480.1
intron # 15
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|31308726|gb|CD393929.1|CD393929
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|16277230|gb|BI942273.1|BI942273
EST:     CTGCTGATGCTTTCTCTGCATNTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|193696079|gb|FK637547.1|FK637547
EST:     TGGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGTCGCAAGTTCCGGGAGACCATTCTTGCTCTTGG
genomic: T-GCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGG-CGCAAGTTCCGGGAGACCATTCTTGCTCTTGG
EST: gi|58024369|gb|CX711110.1|CX711110
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|31310299|gb|CD395502.1|CD395502
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|209720203|gb|BW674541.1|BW674541
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGG
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAG-AAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGG
EST: gi|254336792|gb|GR842971.1|GR842971
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|58021287|gb|CX708029.1|CX708029
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|193704314|gb|FK644764.1|FK644764
EST:     TCTGCATTTGTAGGATTGCTTGGTATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: TCTGCATTTG-AGGA-TGC-TGG-ATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|58018001|gb|CX704743.1|CX704743
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|16284148|gb|BI945931.1|BI945931
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGC
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGC
EST: gi|31462999|gb|CD405027.1|CD405027
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|58022383|gb|CX709124.1|CX709124
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|17022026|gb|BM093060.1|BM093060
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaccggttgttacatgtttgatattttgatcattacgtcttaatacgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT
                                      tcttaat  putative branch site (score: 3)
                     atattttgatcatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatgtcagttatcctggacccatgtttggttaggttgttctgccttgaccggttgttacatgtttgatattttgatcattacgtcttaatacgtacacagGCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - -tcctgga
- - - - - - - - - -ccatgtt
- - - - - - - - - - - - - - - - ggttgtt
- - - - - - - - - - - - - - - - - - - -ctgcctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tacatgt