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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacattgtttctaaatcatttcagttcatttctattatgtgttttctaaatcaaatcatttagcattttaatgtttccaaatatgtcctaatggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGATAGAGCGTCTTCTGAATGAAAACAATGCTTCTTCATCTGAAGACAAGTC

Basic information

species Glycine max
transcript GLYMA06G46640.1
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|8404240|gb|BE059874.1|BE059874
EST:     TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAG                         TTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
genomic: TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAGgtactttccc ... atggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
EST: gi|18040777|gb|BM309071.1|BM309071
EST:     TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAG                         TTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
genomic: TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAGgtactttccc ... atggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
EST: gi|151397508|gb|EV267381.1|EV267381
EST:     TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAG                         TTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
genomic: TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAGgtactttccc ... atggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
EST: gi|192299072|gb|FG992848.1|FG992848
EST:     TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAG                         TTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGTAGAGCGGA
genomic: TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAGgtactttccc ... atggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
EST: gi|298172884|gb|HO019868.1|HO019868
EST:     TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAG                         TTATGGAGGAGTAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
genomic: TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAGgtactttccc ... atggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
EST: gi|6072102|gb|AW101421.1|AW101421
EST:     TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAG                         TTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
genomic: TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAGgtactttccc ... atggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
EST: gi|298176866|gb|HO026873.1|HO026873
EST:     TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAG                         TTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA
genomic: TCAACCGTTCGACTCGTTCGATATCAACCGAGTTGACTCAGATCTCTAAGgtactttccc ... atggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaaatcaaatcatttagcattttaatgtttccaaatatgtcctaatggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGATAGAGCGTCTTCTGAATGAAAACAATGCTTCTTCATCTGAAGACAAGTC
                                        tcctaat  putative branch site (score: 2)
            atttagcattttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacattgtttctaaatcatttcagttcatttctattatgtgttttctaaatcaaatcatttagcattttaatgtttccaaatatgtcctaatggttatagTTATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTGGCAGAGCGGATAGAGCGTCTTCTGAATGAAAACAATGCTTCTTCATCTGAAGACAAGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA