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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatctctctctctcacattttaaaggcagcgaatttcagctgctcttgaattgaacttggtgcgtttctgggaaatggaatgaatttgttgagatttatgttatttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTCAACAGCAGGTCAACATTTCTGTTGGCAAGGAAGTGGATGTCAATGGTGA

Basic information

species Glycine max
transcript GLYMA12G01350.1
intron # 5
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|151393229|gb|EV263104.1|EV263104
EST:     CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGG                         AGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
genomic: CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGGgtatatctct ... ttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
EST: gi|208328757|gb|GE130881.1|GE130881
EST:     TCACTTCAGAGGCCCCAAAGG                         AGAGTGGTTCTAAGTTTCTTGTCTCCAGCTAGTATTGCATCAGTTTCTGTT
genomic: TCACTTCAGAGGCCCCAAAGGgtatatctct ... ttgatttcagAGAGTGGTTC-AAG-TTC-TG-CTCCAGCTAGTATTGCATCAGTTTCTGTT
EST: gi|207813437|gb|GD782936.1|GD782936
EST:     CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGG                         AGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
genomic: CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGGgtatatctct ... ttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
EST: gi|27445790|gb|CA952913.1|CA952913
EST:     CTTCAGAGGCCCCAAAGG                         AGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
genomic: CTTCAGAGGCCCCAAAGGgtatatctct ... ttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
EST: gi|20814980|gb|BQ299458.1|BQ299458
EST:     CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGG                         AGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
genomic: CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGGgtatatctct ... ttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
EST: gi|193589941|gb|FK544297.1|FK544297
EST:     CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGG                         AGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC
genomic: CAACCAAAATCTTGTTCCTTCTTTTCACATCACTTCAGAGGCCCCAAAGGgtatatctct ... ttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcgtttctgggaaatggaatgaatttgttgagatttatgttatttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTCAACAGCAGGTCAACATTTCTGTTGGCAAGGAAGTGGATGTCAATGGTGA
                                           atttgat  putative branch site (score: 5)
                                  atttatgttatttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatctctctctctcacattttaaaggcagcgaatttcagctgctcttgaattgaacttggtgcgtttctgggaaatggaatgaatttgttgagatttatgttatttgatttcagAGAGTGGTTCAAGTTCTGCTCCAGCTAGTATTGCATCAGTTTCTGTTGGTCAACAGCAGGTCAACATTTCTGTTGGCAAGGAAGTGGATGTCAATGGTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA