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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGATGTTACCAGATATCGCTATGGAGATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatttgaattagtgaattatgctttaggaattcaatgaaacataaaagtaacatttttgtatattatttatttttccattttcatattttgagg...

Basic information

species Glycine max
transcript GLYMA19G06090.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G06090.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv15s0048g01820.t01 (Vitis vinifera), 5'ss of exon 2
------AGCGATGTTACCAGATATCGCTATGGAGATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatttgaattagtgaattatgctttaggaattcaatgaaacataaaagtaacatttttgtatattatttatttttccat--tttcatattttgagg-
      |  |||||||  |||||||| ||||| ||||| || ||| |||| || |||||||||||||| ||||||||||| |  ||| ||| |   | ||  |   |||||||  | | | |   || |   ||    |   ||     || | ||| |       |||   ||  ||||||   | 
GTCAGGAATGATGTTATAAGATATCGTTATGGGGATGAACAACATCTGGAAGAAGCATTGAAACGGATTTTTCAGTATGGTCTGgtaggttctgcaacttcatt--ttatgctacatgtaatttttggatggtatttctc-tatcaacataaaatatctgagagatcatacctttttattttattgt

upper sequence: GLYMA19G06090.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0083g00070.t01 (Vitis vinifera), 5'ss of exon 5
------AGCGATGTTACCAGATATCGCTATGGAGATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatttgaattagtgaattatgctttaggaattcaatgaaacataaaagtaacatttttgtatattatttatttttccat--tttcatattttgagg-
      |  |||||||  |||||||| ||||| ||||| |||||| |||| || |||||||||||||| ||||||||||| |  ||| ||| |   | ||  |   |||||||  | | | |   || |  |||    |   ||     || | ||| |       |||   ||  ||||||   | 
GTCAGGAATGATGTTATAAGATATCGTTATGGGGATGAACAGCATCTGGAAGAAGCATTGAAACGGATTTTTCAGTATGGTCTGgtaggttctgcaacttcatt--ttatgctacatgtaatttttggatgatatttctc-tatcaacataaaatatctgagagatcatacctttttattttattgt

upper sequence: GLYMA19G06090.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0041g00450.t01 (Vitis vinifera), 5'ss of exon 2
AGCGATGTTACCAGATATCGCTATGGAGATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgtt-----atttgaattagtgaattatgc---tttaggaattcaatgaaacataaaagtaacatttttgt-atattat---ttatttttccattttcatattttgagg---------------------------------
                       ||| ||||| || |||||||| || |||||||||||||| ||||||||||| |  ||| |||     | || | ||  ||    |||    ||| |||    | |     || ||  ||| || | ||  | || ||   || || ||  ||| | |  |  |  ||                                 
-----------------------TGGGGATGAACAACATTTGGAAGAAGCATTGAAACGGATTTTTCAGTATGGTCTGGTAGGTTCTGCAACTTCATTTTATGCTACATGTAATTTTTGGATGgtatttctctatcaacataaaatatctgagagatcatacctttttattttattgttacttgctttggttgcaccaatctactacctagggcaaggcttag

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|7284959|gb|AW597446.1|AW597446
EST:     ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAA                         GGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
genomic: ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatt ... tttgtttcagGGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
EST: gi|5509244|gb|AI855802.1|AI855802
EST:     ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAA                         GGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
genomic: ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatt ... tttgtttcagGGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
EST: gi|14206191|gb|BG839869.1|BG839869
EST:     ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAA                         GGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
genomic: ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatt ... tttgtttcagGGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
EST: gi|51338338|gb|CO982204.1|CO982204
EST:     ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAA                         GGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
genomic: ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatt ... tttgtttcagGGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
EST: gi|209722136|gb|BW659325.1|BW659325
EST:     ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAA                         GGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
genomic: ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatt ... tttgtttcagGGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
EST: gi|163923391|gb|EH039694.1|EH039694
EST:     ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAA                         GGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
genomic: ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatt ... tttgtttcagGGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
EST: gi|15287963|gb|BI471854.1|BI471854
EST:     ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAA                         GGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA
genomic: ATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatt ... tttgtttcagGGAGGAGGAATACCAAGGAGAAGTGCTCCTGTTTTACAATCGATTCGTGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCGATGTTACCAGATATCGCTATGGAGATGAGCAGCATTTGGATGAGGCATTGAAACGGATATTTCAGTATGGCCAAgtatgttatttgaattagtgaattatgctttaggaattcaatgaaacataaaagtaacatttttgtatattatttatttttccattttcatattttgagg

- - - - - - - - - - - - - - - GAGCAG