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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCAACGGTTGAGGCTTCTTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattacttgctaacttttcaaccttatatttttatccaactctcctctggtttacacatctattttgtagcattatctatccatttgtgaagttataa...

Basic information

species Glycine max
transcript GLYMA04G40760.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G40760.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 5'ss of exon 9
GTTCAACGGTTGAGGCTTCTTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattacttgctaacttttcaaccttatatttt-tatccaactctcctctggtttacacatctattttgtagcattatctatccatttgtgaagttataa-------
||||| || |||||||| |||||||| || ||||| || ||||||||||||||||| |||||   | |||||| ||| | | | || || ||| || |||    |||||    |  ||| ||| |    |  | || |||| || |      ||||  |||||||| |         
GTTCATCGCTTGAGGCTGCTTGGAGACTATCATCACTCTACTCGAATTGCTTTTGTCGAGTTTGTAATGgtaactacctacaagctcttaaactttctatgccatatcctttacctctcaggtgt---tactttttctgtaacaatgca---ccat--gtgaagttctccctccttt
















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|51335860|gb|CO979726.1|CO979726
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|10238752|gb|BE807640.1|BE807640
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTNTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|12773859|gb|BG238786.1|BG238786
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|254327105|gb|GR836714.1|GR836714
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|209727239|gb|BW663300.1|BW663300
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|254339083|gb|GR847800.1|GR847800
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|254334793|gb|GR844578.1|GR844578
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|10233834|gb|BE802722.1|BE802722
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|26268235|gb|CA819298.1|CA819298
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
EST: gi|192307294|gb|FK002372.1|FK002372
EST:     TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTG                         GCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA
genomic: TTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattactt ... attctttcagGCTGAGAGTGCAATTGCAGCTCTAAGCTGTAGTGGGGTGATTTTGGGTTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCAACGGTTGAGGCTTCTTGGAGATTACCATCATTCAACTCGAATTGCTTTTGTTGAGTTCACAGTGgtaattacttgctaacttttcaaccttatatttttatccaactctcctctggtttacacatctattttgtagcattatctatccatttgtgaagttataa

- - - - - - - - -  TTGGAG
- - - - - - - - - - TGGAGA
- - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctcct