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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATACGTTCCGTGGGAGAGTATGTGAATGCCCCCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcatttaagctatatagagttttgttcatgttatttgtaattgagaaaaaaaggatgaaattagaaggattcatatttaacattatgaacagtaatc...

Basic information

species Glycine max
transcript GLYMA10G40340.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G40340.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv03s0091g00740.t01 (Vitis vinifera), 5'ss of exon 7
GATACGTTCCGTGGGAGAGTATGTGAATGCCCCCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcatttaagctatatagagttttgttcatgttatttgtaattgagaaaaaaaggatgaaattagaaggattcatatttaacattatgaac-agtaatc----
||||| || || |||||||| |||||||||||| |||| ||||||||| | ||||| ||||| || || |   |||||| ||||    || |  ||  |||    ||||||    | |  | |||     ||       | ||||       |  |  |   ||  || || | | ||| | |    
GATACATTTCGCGGGAGAGTGTGTGAATGCCCCTTGGTTGATGGTGTGAAGTTTAAGGGAGATGGTTACAGTTCCTGTGAAGgtaaagttcacacttgatat--ctttgtttgcataaaatttaac---aaatctcttcaagaaacaccctaggcttttgcctatgatcataatctagtgaacactt
















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|193392407|gb|FK358300.1|FK358300
EST:     CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
genomic: CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
EST: gi|193350563|gb|FK317511.1|FK317511
EST:     CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTTGTTGGCATGAA
genomic: CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTT-GTTGGCATGAA
EST: gi|193321258|gb|FK284484.1|FK284484
EST:     CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
genomic: CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
EST: gi|193358102|gb|FK319702.1|FK319702
EST:     CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
genomic: CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
EST: gi|207762698|gb|GD732929.1|GD732929
EST:     GAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
genomic: GAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
EST: gi|208302566|gb|GE099057.1|GE099057
EST:     CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
genomic: CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
EST: gi|208313107|gb|GE117245.1|GE117245
EST:     CTGGTGGATGGTGTGCAAATTTAAAGGAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGACAAAGATAAACAATGGAGGTTGTTGGCATGA
genomic: CTGGTGGATGGTGTGCAA-TTTAAAGGAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTG-CAA-GATAAACAATGGAGGTTGTTGGCATGA
EST: gi|208220705|gb|GE018499.1|GE018499
EST:     CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAG                         CTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG
genomic: CCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcattta ... gggtttgcagCTAGTGGACCTGGGCATTGCAAGATAAACAATGGAGGTTGTTGGCATGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATACGTTCCGTGGGAGAGTATGTGAATGCCCCCTGGTGGATGGTGTGCAATTTAAAGGAGACGGATATACAACCTGTGCAGgtttcatttaagctatatagagttttgttcatgttatttgtaattgagaaaaaaaggatgaaattagaaggattcatatttaacattatgaacagtaatc

- - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaaa