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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattattcaccttttcacactccactttttttatttcattctttcaattaaaaaaaagaagataattctagatttttaaatttgttttgttatatgaacatcaacattagtagcagaatgttttaaatcaattggtacatggtgactgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG

Basic information

species Glycine max
transcript GLYMA17G12530.1
intron # 1
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|209717393|gb|BW659069.1|BW659069
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
EST: gi|193559569|gb|FK515418.1|FK515418
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACA
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACA
EST: gi|151408308|gb|EV278116.1|EV278116
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
EST: gi|11689821|gb|BF597497.1|BF597497
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
EST: gi|254335317|gb|GR846814.1|GR846814
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
EST: gi|192309123|gb|FG999070.1|FG999070
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
EST: gi|14990383|gb|BI316056.1|BI316056
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTACTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
EST: gi|207791161|gb|GD760562.1|GD760562
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTACTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
EST: gi|213588992|gb|DB973092.1|DB973092
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAG
EST: gi|7588554|gb|AW704277.1|AW704277
EST:     CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTC                         GCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
genomic: CCATTTCCGGCGGAGTCTCCTTCCTTTTCTACCATTCCTCTCCCAACTTCgtaattattc ... ctgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaacattagtagcagaatgttttaaatcaattggtacatggtgactgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG
                aatgttttaaatcaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattattcaccttttcacactccactttttttatttcattctttcaattaaaaaaaagaagataattctagatttttaaatttgttttgttatatgaacatcaacattagtagcagaatgttttaaatcaattggtacatggtgactgtttgcagGCTCATTCACAAGAAGCAGAACAAGTGGAAAGTAAAAACATCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA