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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttaaaacccaaaagggaaaagggaatcaaacataccctttcttgtataaatttccattgctgtaccttgatttctcataaacccgtccctcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATGAAGGTCTTGGAGACAAGTAGTCCGTCCTCTCTTACTGTCCCAACTTTTC

Basic information

species Glycine max
transcript GLYMA10G35290.1
intron # 12
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|9903241|gb|BE612209.1|BE612209
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTG
EST: gi|21888591|gb|BQ741804.1|BQ741804
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|31467183|gb|CD409211.1|CD409211
EST:     TTATGGCTTACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|254348287|gb|GR851966.1|GR851966
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|22928875|gb|BU546014.1|BU546014
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|15663144|gb|BI700515.1|BI700515
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|14008794|gb|BG725398.1|BG725398
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|254348286|gb|GR851965.1|GR851965
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|10252797|gb|BE820563.1|BE820563
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|254330699|gb|GR841964.1|GR841964
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|7693297|gb|AW761391.1|AW761391
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|254330700|gb|GR841965.1|GR841965
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
EST: gi|214005809|gb|DB990151.1|DB990151
EST:     TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAG                         AAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG
genomic: TTATGGCAAACATATAGTTTCCCGTGTGGAGAAGCTGATAACCACTGGAGgtgaggaatg ... tcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaatttccattgctgtaccttgatttctcataaacccgtccctcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATGAAGGTCTTGGAGACAAGTAGTCCGTCCTCTCTTACTGTCCCAACTTTTC
                    ccttgat  putative branch site (score: 5)
                                     cccgtccctcattt  putative PPT
                      ttgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttaaaacccaaaagggaaaagggaatcaaacataccctttcttgtataaatttccattgctgtaccttgatttctcataaacccgtccctcatttgcagAAAGGCGCATAGGGTTGTTGGCCTAATTCGTTCATCCTCAGGCATCCAATGAAGGTCTTGGAGACAAGTAGTCCGTCCTCTCTTACTGTCCCAACTTTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - -cccaaaa
- - - - - - - - - - - - - -caaacat
- - - - - - - - - - - - - - - - - -ccctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgtacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccgtcc