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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGCAAACCGAGTCAACCTTAAGTGCAGAAGTTGAACTTATTTCCACAACAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttattggtttactaattccatgaaaatgggcaggtgtcatactatatctgctctttacttctcagtgttttatgttgttatcatcagtgctaaat...

Basic information

species Glycine max
transcript GLYMA17G16630.3
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G16630.2 (Glycine max), 5'ss of exon 10
lower sequence: EFJ25669 (Selaginella moellendorffii), 5'ss of exon 11
TGGGCAAACCGAGTCAACCTTAAGTGCAGAAGTTGAACTTATTTCCACAACAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttat-tggtttactaattccatgaaaatgggcaggtgtcatactatatctgctctttacttctcagtgttttatgttgttatcatcagtgctaaat
 || ||| |||||   ||  | ||||| ||||| |||||||| || || |     || |  ||    |||||  ||||||||||||||||||||||||| ||     |     | |     || | |||       ||  | || ||| |                                                   
CGGCCAAGCCGAGCTGACAATGAGTGCCGAAGTGGAACTTATCTCAACGATGGTCGAGAGAAAGAGCTGGACACGACCACCAATTCAGATGGAGTTTCAAgtaaaaaacactatctttctcttgcgtgatttcttacaatt-tcttaccag--------------------------------------------------
















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|254325028|gb|GR834453.1|GR834453
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|254325029|gb|GR834454.1|GR834454
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|193382059|gb|FK345746.1|FK345746
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGACGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|37996956|gb|CF808545.1|CF808545
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|254315557|gb|GR825366.1|GR825366
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|254322718|gb|GR835540.1|GR835540
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|5606842|gb|AI900940.1|AI900940
EST:     CACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|207734392|gb|GD710102.1|GD710102
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|19346229|gb|BM891109.1|BM891109
EST:     CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|209699280|gb|BW670242.1|BW670242
EST:     ATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: ATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
EST: gi|16342565|gb|BI968160.1|BI968160
EST:     CACCAATTCAGATGGAGTTTCAG                         GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG
genomic: CACCAATTCAGATGGAGTTTCAGgtgtgttatt ... cttgatgcagGTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGCAAACCGAGTCAACCTTAAGTGCAGAAGTTGAACTTATTTCCACAACAACAGAAAAGAAATCTTGGACTAGACCACCAATTCAGATGGAGTTTCAGgtgtgttattggtttactaattccatgaaaatgggcaggtgtcatactatatctgctctttacttctcagtgttttatgttgttatcatcagtgctaaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA