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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggtctcttaactagttgtttttcttttcatcaagaaactttatcttttcttatactctttatttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACTCCTCCACCCG

Basic information

species Glycine max
transcript GLYMA01G35190.2
intron # 11
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|19938441|gb|BQ081721.1|BQ081721
EST:     CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
genomic: CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAGgtggtctctt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
EST: gi|26059828|gb|CA802742.1|CA802742
EST:     CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCTACAGAGCAGTAGCGAGAACT
genomic: CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAGgtggtctctt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
EST: gi|11274199|gb|BF324567.1|BF324567
EST:     CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
genomic: CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAGgtggtctctt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
EST: gi|9203919|gb|BE330143.1|BE330143
EST:     CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
genomic: CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAGgtggtctctt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
EST: gi|298163466|gb|HO012199.1|HO012199
EST:     CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
genomic: CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAGgtggtctctt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
EST: gi|298178671|gb|HO024406.1|HO024406
EST:     CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
genomic: CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAGgtggtctctt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcttttcatcaagaaactttatcttttcttatactctttatttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACTCCTCCACCCG
                    ctttatcttttcttat  CT-rich tract
                     tttatcttttcttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggtctcttaactagttgtttttcttttcatcaagaaactttatcttttcttatactctttatttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACTCCTCCACCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC