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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACTTAATTGAAGCAATGCCAACTTCTCCTATTTTCGTGGGAAACAAAGCGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtcttaactttatctgtgacattctttcttctcttaactgtctcctttttcttttcttgcaaaatgcacaccatattatgttcatctcccatgaatctgttttcctcttgtgcag

Basic information

species Glycine max
transcript GLYMA07G05100.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05100.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G153722_T01 (Zea mays), 5'ss of exon 10
GAACTTAATTGAAGCAATGCCAACTTCTCCTATTTTCGTGGGAAACAAAGCGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtct---taactttatctgtgacattctttcttctcttaactgtctcctttttcttttcttgcaaaatgcacaccatattatgttcatctcccatgaatctgttttcctcttgtgcag
||||||||||||||||||||||||||| || ||||| || || ||||| || ||  |  |  | || |||||||| ||||| || ||   ||| || ||||||||| |   | | ||||||  |  |||     ||| |   || ||       || |    ||  |   |   ||  | | || |||||| |   | | |                     
GAACTTAATTGAAGCAATGCCAACTTCACCGATTTTTGTTGGGAACAAGGCAAAGCGGCTACTGGAAAGAGCTGTTTGGAACGATACATCTTTCCTAGCTgtaagtttgcatcaatttatccttctcatcaaagcttataggaaatgcagtggcttccagagctatcttca---acttcttcttttgttcaacaatcttcagc-------------------

upper sequence: GLYMA07G05100.1 (Glycine max), 5'ss of exon 11
lower sequence: AT3G14270.1 (Arabidopsis thaliana), 5'ss of exon 11
GAACTTAATTGAAGCAATGCCAACTTCTCCTATTTTCGTGGGAAACAAAGCGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtcttaactttatctgtgacattctttcttctcttaactgtctcctttttcttttcttgcaaaatgcacaccatattatgttcatctcccatgaatctgttttcctcttgtgcag
 ||||| ||||||||||||||||||||||| |||||||| || |||||||| ||| ||||||| || |||||||||||||| || |||| ||||||||| || ||| |||   || |      ||||   ||||| ||  ||| | |        |||  | |||| |     || ||||| |     | | |                          
AAACTTGATTGAAGCAATGCCAACTTCTCCCATTTTCGTCGGTAACAAAGCAAAACGATTGTTGGAAAGAGCTGTCTGGAACGATACTGCTTTTCTTGCAgtgagttttattcttctgcaaaccatttactcttcact--actctttgaaaagg-tttattagcaata-----actatatttttcgtgtttgcag------------------------

upper sequence: GLYMA07G05100.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv09s0002g00380.t01 (Vitis vinifera), 5'ss of exon 15
GAACTTAATTGAAGCAATGCCAACTTCTCCTATTTTCGTGGGAAACAAAGCGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtcttaactttatctgtgacattctttcttctcttaactgtctcctttttcttttcttgcaaaatgcacaccatattatgttcatctcc-catgaatctgttttcctcttgtgcag
|||||||||||||||||||||||||||||| ||||| ||||| ||||| || || ||  |||| |||||||||||||||||||| |||  ||||||||| |||||| || |       ||||    ||          ||  |      ||    |||||  | | | |  |  |    || | | ||| |     |   | |   ||   ||  | |||
GAACTTAATTGAAGCAATGCCAACTTCTCCCATTTTTGTGGGGAACAAGGCAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttgaaaccgattgtgttgctcccaaagtcaatatgtaggctgttccaattttcaagtagattaaatgc----ttgtatccattttaatgtctctttacattatgctattacag

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|13252710|gb|BG363613.1|BG363613
EST:     CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
genomic: CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtctta ... tcttgtgcagTCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
EST: gi|7588058|gb|AW703862.1|AW703862
EST:     CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGCTGTGATGGACTATTCTNTACTGGTTGGAGTGGATGAAGAGAAG
genomic: CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtctta ... tcttgtgcagTCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
EST: gi|13240098|gb|BG359407.1|BG359407
EST:     CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
genomic: CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtctta ... tcttgtgcagTCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
EST: gi|17023750|gb|BM094784.1|BM094784
EST:     CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
genomic: CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtctta ... tcttgtgcagTCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
EST: gi|6133944|gb|AW132337.1|AW132337
EST:     CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGCTGTGATGGACTATTCTATACTGGTTGGAGTGGATGAAGAGAAG
genomic: CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtctta ... tcttgtgcagTCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
EST: gi|9564839|gb|BE474348.1|BE474348
EST:     CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
genomic: CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtctta ... tcttgtgcagTCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAACTTAATTGAAGCAATGCCAACTTCTCCTATTTTCGTGGGAAACAAAGCGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaagtcttaactttatctgtgacattctttcttctcttaactgtctcctttttcttttcttgcaaaatgcacaccatattatgttcatctcccatgaatctgttttcctcttgtgcag

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