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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaagctgtatgataggttggacttaatgtttttggatttattgttttaacagtctaatttattctacttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAATGGAAGGAATCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGCA

Basic information

species Glycine max
transcript GLYMA13G34370.1
intron # 4
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|13788204|gb|BG650796.1|BG650796
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|298188471|gb|HO035164.1|HO035164
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|7691868|gb|AW759987.1|AW759987
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|26058357|gb|CA801271.1|CA801271
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|298168692|gb|HO009622.1|HO009622
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|17020953|gb|BM091987.1|BM091987
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|17964777|gb|BM271506.1|BM271506
EST:     CTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|8827474|gb|BE211204.1|BE211204
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|18690777|gb|BM519625.1|BM519625
EST:     CCATCATTCTTCAGACTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|57575142|gb|CX548117.1|CX548117
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|20813072|gb|BQ297550.1|BQ297550
EST:     CTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttaatgtttttggatttattgttttaacagtctaatttattctacttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAATGGAAGGAATCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGCA
                                         ttctactt  CT-rich tract
               atttattgttttaaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattaagctgtatgataggttggacttaatgtttttggatttattgttttaacagtctaatttattctacttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAATGGAAGGAATCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG