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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtgatgtcagttatcctggacccatggtgttaggttgttcctccttgaccagttgttacatgcttgatattgatcatcatgtctttatacgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT

Basic information

species Glycine max
transcript GLYMA09G33490.1
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|19345902|gb|BM890782.1|BM890782
EST:     CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|17963650|gb|BM270397.1|BM270397
EST:     CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|193731702|gb|FK667544.1|FK667544
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|193548022|gb|FK505191.1|FK505191
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|15589634|gb|BI674250.1|BI674250
EST:     CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|193527255|gb|FK483409.1|FK483409
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|254348574|gb|GR852253.1|GR852253
EST:     CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACTGGGCGAAAGTTCCGG
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGG
EST: gi|207715848|gb|GD697966.1|GD697966
EST:     CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|193624092|gb|FK573916.1|FK573916
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|21889700|gb|BQ742913.1|BQ742913
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGCAAGTTCCGGGAGACCATTCTTGCTCTTGGA
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGA
EST: gi|193649185|gb|FK599794.1|FK599794
EST:     CTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAG                         GCTGTTAAAGAAACGGGGCGACAAGTTCCGGGAGACCATTCTTGCTCTTGG
genomic: CTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGATTGGATAATGACAAGgtatattttt ... acgtacgcagGCTGTTAAAGAAACTGGGCGA-AAGTTCCGGGAGACCATTCTTGCTCTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgaccagttgttacatgcttgatattgatcatcatgtctttatacgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT
                        tattgat  putative branch site (score: 3)
                    ttgatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagtgatgtcagttatcctggacccatggtgttaggttgttcctccttgaccagttgttacatgcttgatattgatcatcatgtctttatacgtacgcagGCTGTTAAAGAAACTGGGCGAAAGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- -tgatgtc
- - - - - - - -tcctgga
- - - - - - - - - - - -ccatggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtc