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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACCTTCTTGGTGAAGACTTGGGCCCACTAAATACCAAAGATCTTGAGCAGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaatatcaatgtttcattttttttttccttcagaaaattatacatagaaagctcatcaatgttgtacttgttgcattgaccctggccacataac...

Basic information

species Glycine max
transcript GLYMA13G06730.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G06730.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv14s0083g01050.t01 (Vitis vinifera), 5'ss of exon 4
GAACCTTCTTGGTGAAGACTTGGGCCCACTAAATACCAAAGATCTTGAGCAGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaatatcaatgtttcattttttttttccttcagaaaattatacatagaaagctcatcaatgttgtact--tgttgcattgaccctggccacataac--
 ||||||||||| ||||||||||| ||| | || || ||||| |||||||||||||| || ||||| ||  ||||  | |||||||| ||||| || ||||| |  || | |   | |   |     | | |    || ||      |  ||        |  ||| ||| | |  | ||   ||||   ||   | | ||   
AAACCTTCTTGGGGAAGACTTGGGTCCATTGAACACAAAAGAGCTTGAGCAGCTTGAACGTCAACTTGAGACATCCTTGAAGCAAGTCAGGTCTACTAAGgtaaccaa-tttttctttaaaaaagagtgtatttaccataagtgctgaagtaattgtgatactaat-ttgaattagtattatgttgataatg--tataaaatta
















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|207718951|gb|GD700733.1|GD700733
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|208244876|gb|GE042067.1|GE042067
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGGAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAGGAG
EST: gi|298176561|gb|HO023148.1|HO023148
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|193697032|gb|FK638874.1|FK638874
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|193510569|gb|FK468075.1|FK468075
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|193609973|gb|FK563535.1|FK563535
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|17020647|gb|BM091681.1|BM091681
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|208331677|gb|GE132390.1|GE132390
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTT
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTT
EST: gi|207683310|gb|GD665975.1|GD665975
EST:     CGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: CGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|11117964|gb|BF219557.1|BF219557
EST:     AGCNNGAGCGGCAACTGGATTCATCNCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|193307217|gb|FK272989.1|FK272989
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
EST: gi|8284985|gb|BE022544.1|BE022544
EST:     AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAG                         ACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG
genomic: AGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaat ... tactttgcagACTCAGTTCATGCTGGACCAGTTAGCTGATCTTCAGAATAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAACCTTCTTGGTGAAGACTTGGGCCCACTAAATACCAAAGATCTTGAGCAGCTTGAGCGGCAACTGGATTCATCTCTCAAGCAAGTGAGGTCCACAAAGgtgataaaatatcaatgtttcattttttttttccttcagaaaattatacatagaaagctcatcaatgttgtacttgttgcattgaccctggccacataac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG