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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cataaattccgtttccttgtatagaggatcagcgttgcatcaaccaccttgtactacattatttccttttagcctttgcttattgggctcatgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACGAACTCAATTTGAGTCTATAGAGAGACCAATTCTTGAAATAGAGACCCCT

Basic information

species Glycine max
transcript GLYMA20G38530.1
intron # 17
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|9985234|gb|BE659342.1|BE659342
EST:     GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAG                         GAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
genomic: GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAGgttttgtatt ... atgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
EST: gi|254327727|gb|GR834692.1|GR834692
EST:     GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAG                         GAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
genomic: GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAGgttttgtatt ... atgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
EST: gi|209727141|gb|BW660147.1|BW660147
EST:     GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAG                         GAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
genomic: GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAGgttttgtatt ... atgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
EST: gi|57575890|gb|CX548861.1|CX548861
EST:     GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAG                         GAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
genomic: GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAGgttttgtatt ... atgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
EST: gi|22927331|gb|BU544470.1|BU544470
EST:     ATGCTCAACAGGGGAGAATTTCCAG                         GAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
genomic: ATGCTCAACAGGGGAGAATTTCCAGgttttgtatt ... atgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
EST: gi|151410338|gb|EV280153.1|EV280153
EST:     GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAG                         GAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
genomic: GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAGgttttgtatt ... atgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
EST: gi|58025300|gb|CX712041.1|CX712041
EST:     GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAG                         GAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG
genomic: GTGGATAACATAAAACAGCAGTTTTATGCTCAACAGGGGAGAATTTCCAGgttttgtatt ... atgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accttgtactacattatttccttttagcctttgcttattgggctcatgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACGAACTCAATTTGAGTCTATAGAGAGACCAATTCTTGAAATAGAGACCCCT
            attatttcctttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cataaattccgtttccttgtatagaggatcagcgttgcatcaaccaccttgtactacattatttccttttagcctttgcttattgggctcatgaatccagGAAAGATGAAGAGAGAGTTAAAGAGCTGTTTGAAGCCATTGAAAAGTTACGAACTCAATTTGAGTCTATAGAGAGACCAATTCTTGAAATAGAGACCCCT

- - - - - - - ccttgta
- - - - - - - - - - - - - - - - cgttgca
- - - - - - - - - - - - - - - - - - - - - -ccacctt
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctacatt