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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTAAATCACAGCTAGTTGTAGATGGAGTTATTTGGCATGTGACCTGTGTTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattttgacatacaatttccatttatgtattaaacagtgcatactagatctattcagttgaatgaaacattgtggaatagtaggaagacaagaca...

Basic information

species Glycine max
transcript GLYMA19G35780.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G35780.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os12g37960.1 (Oryza sativa), 5'ss of exon 5
TGTTAAATCACAGCTAGTTGTAGATGGAGTTATTTGGCATGTGACCTGTGTTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattttgacatacaatttccatttatgtattaaacagtgcatactagatctattcagttgaatgaaacattgtggaatagtaggaagacaagaca--
|||  || |  |  | |  || |||||    |  ||||| || ||||||||||||||||| |||||||| ||||| || ||  | | | | |    | ||||  ||   |||  |    || | |   ||  | | ||  |     |   | | |  || |  ||  | ||| ||| |   |||  |  | |  ||      
TGTCCAAGCTGATTTGGCAGTTGATGGCTCAACATGGCAAGTAACCTGTGTTAGCATGGGCAATCCACATTGTGTCACATTTGGCACAAAGGAGCTCAAGgtaattgacttgcaagttcatattctcgtagttttaaattacattctgtcaaaaccgttaatatgcct-aaatatt-tcctatacaaatatgttaaattgtt

upper sequence: GLYMA19G35780.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0040g02540.t01 (Vitis vinifera), 5'ss of exon 5
TGTTAAATCACAGCTAGTTGTAGATGGAGTTATTTGGCATGTGACCTGTGTTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattttg-acatacaatttccatttatgtattaaacagtgcatactagatctattcagttgaatgaaacattgtgga-atagtaggaagacaagaca
|||||||||| | |||   |||||||| ||    ||| ||||||| |||||||| ||||| ||||| ||||||||||||||  | | | ||||| ||||||| |  |||||| ||||       | |||  || |||      | |||  |||||| |||| |||| |       |   | | ||  |       |   | |
TGTTAAATCAGAACTAAACGTAGATGGTGTATCCTGGAATGTGACTTGTGTTAGTATGGGAAATCCTCACTGTGTAACTTTTGGAACAAAAGGAGGCCAGgtatggattttggacatgatggaacaattagtg-attgttgtattcatg-tagatccattctgttgtaccttgtttaaagtatatgtttctttttcttaata
















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|6951840|gb|AW423908.1|AW423908
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAATGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|5760072|gb|AI965435.1|AI965435
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|16105795|gb|BI893535.1|BI893535
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|9984976|gb|BE659084.1|BE659084
EST:     TTAGCATGGGGAATCCANACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|192307889|gb|FG999368.1|FG999368
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|214007669|gb|DB986035.1|DB986035
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCC-AAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|21994910|gb|BQ786438.1|BQ786438
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|58021806|gb|CX708547.1|CX708547
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
EST: gi|151406971|gb|EV276786.1|EV276786
EST:     TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAG                         AATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA
genomic: TTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattt ... gttgcaacagAATTTGCTTGTTGATGAATTGAAGCTAGCAGAAATTGGGCCAAAATTTGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTTAAATCACAGCTAGTTGTAGATGGAGTTATTTGGCATGTGACCTGTGTTAGCATGGGGAATCCACACTGTGTAACTTTCAGTAGAGAAGGAAGCCAGgtctttattttgacatacaatttccatttatgtattaaacagtgcatactagatctattcagttgaatgaaacattgtggaatagtaggaagacaagaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA