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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaaactttactttcctacgcataacaaaaaatggtaaggaactagtcttgattcgatgttgctaaccgaaaatctctactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCCCGTGACTCACCCCTCAGAGTTGAAGAACCTGATTATCAGGGCATCAAGC

Basic information

species Glycine max
transcript GLYMA15G06170.1
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|208329589|gb|GE127166.1|GE127166
EST:     CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTG                         GTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
genomic: CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTGgtatgcaaac ... tactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
EST: gi|9820759|gb|BE556269.1|BE556269
EST:     CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTG                         GTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
genomic: CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTGgtatgcaaac ... tactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
EST: gi|298167802|gb|HO013065.1|HO013065
EST:     CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTG                         GTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGTTGGCCTTGCCC
genomic: CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTGgtatgcaaac ... tactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
EST: gi|208305285|gb|GE107438.1|GE107438
EST:     CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTG                         GTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
genomic: CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTGgtatgcaaac ... tactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
EST: gi|151408835|gb|EV278643.1|EV278643
EST:     CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTG                         GTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
genomic: CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTGgtatgcaaac ... tactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
EST: gi|19054294|gb|BM732961.1|BM732961
EST:     CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTG                         GTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
genomic: CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTGgtatgcaaac ... tactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
EST: gi|5606611|gb|AI900709.1|AI900709
EST:     CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTG                         GTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC
genomic: CCGGGGTTGCACCCGCGCCAACGATAGAGGACAAACCTCACCGCCCCGTGgtatgcaaac ... tactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtaaggaactagtcttgattcgatgttgctaaccgaaaatctctactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCCCGTGACTCACCCCTCAGAGTTGAAGAACCTGATTATCAGGGCATCAAGC
                            tgctaac  putative branch site (score: 1)
                                         tctctacttt  putative PPT
                                     aaaatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcaaactttactttcctacgcataacaaaaaatggtaaggaactagtcttgattcgatgttgctaaccgaaaatctctactttgcagGTTAACCTAGATAAAATGTTTTGGTCTAAACCCTGTTCGCTGGCCTTGCCCCGTGACTCACCCCTCAGAGTTGAAGAACCTGATTATCAGGGCATCAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC