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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gacctgacttgaggagcacctatgattgattgatttgaatattgaattacaagagataaaactgaatggagaataacagtgtctttaaattgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGGTGATGAAGCAACAATAAAGGAAATAATCTCTGAGGTGGATGCAGATAAT

Basic information

species Glycine max
transcript GLYMA17G01730.1
intron # 6
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|193402470|gb|FK369802.1|FK369802
EST:     ATGAACATCTTTACAAAGCATTCCAGTATTTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: ATGAACATCTTTACAAAGCATTCCAGTATTTT-GATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|51338304|gb|CO982170.1|CO982170
EST:     GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|192302488|gb|FG994810.1|FG994810
EST:     GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|209725895|gb|BW654732.1|BW654732
EST:     TTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGTTATGACTCAAAATGGAATGGG
genomic: TTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|7685078|gb|AW755726.1|AW755726
EST:     GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|9565244|gb|BE474753.1|BE474753
EST:     GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|298191902|gb|HO035984.1|HO035984
EST:     GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|58024939|gb|CX711680.1|CX711680
EST:     GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|192302489|gb|FG994811.1|FG994811
EST:     GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GATGAACATCTTTACAAAGCATTCCAGTATTTTGATAAGGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
EST: gi|193578771|gb|FK535317.1|FK535317
EST:     GGATAACAGTGG                         GTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG
genomic: GGATAACAGTGGgtgagtttta ... tgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attacaagagataaaactgaatggagaataacagtgtctttaaattgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGGTGATGAAGCAACAATAAAGGAAATAATCTCTGAGGTGGATGCAGATAAT
                                      tttaaattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gacctgacttgaggagcacctatgattgattgatttgaatattgaattacaagagataaaactgaatggagaataacagtgtctttaaattgatggacagGTATATTACAAGAGATGAATTGGAGATTGCTATGACTCAAAATGGAATGGGTGATGAAGCAACAATAAAGGAAATAATCTCTGAGGTGGATGCAGATAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- cctgact
- - - - - - - - - cctatga
- - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gataaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaataac