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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgatgattgatatatattattactcaacaaaactaatacagtactattcagatatctgtcactgtctgttacaaattattcatcaattcccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAAGAACTACTGGAGGACAAGGATCCAGAAGCACCTCAAGCAAGCTTCCAGC

Basic information

species Glycine max
transcript GLYMA19G14230.1
intron # 2
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|18733532|gb|BM527664.1|BM527664
EST:     CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
EST: gi|151395508|gb|EV265385.1|EV265385
EST:     CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
EST: gi|10236183|gb|BE805071.1|BE805071
EST:     CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
EST: gi|6963671|gb|AW432364.1|AW432364
EST:     TGATCATGGAACTTCATGCAAAGTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: TGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
EST: gi|192295934|gb|FG990930.1|FG990930
EST:     CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
EST: gi|8401736|gb|BE057370.1|BE057370
EST:     CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
EST: gi|6951890|gb|AW423958.1|AW423958
EST:     CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAATTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
EST: gi|18733261|gb|BM527508.1|BM527508
EST:     CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAG                         GTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA
genomic: CCCGAGGAACAGCTTTTGATCATGGAACTTCATGCAAAGTGGGGAAACAGgtgaatttat ... cccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattcagatatctgtcactgtctgttacaaattattcatcaattcccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAAGAACTACTGGAGGACAAGGATCCAGAAGCACCTCAAGCAAGCTTCCAGC
                                           ttccc  CT-rich tract
                             aaattattcatcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgatgattgatatatattattactcaacaaaactaatacagtactattcagatatctgtcactgtctgttacaaattattcatcaattcccaacgcagGTGGTCCAAAATTGCCAAGCATCTACCCGGAAGGACTGATAATGAGATTAAGAACTACTGGAGGACAAGGATCCAGAAGCACCTCAAGCAAGCTTCCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- tgatgat
- - - - - - - - - - - - ctcaaca
- - - - - - - - - - - - - - - - - - - - - - -ctattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgtcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtctgtt