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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACTAATGCTGATATAATCAAGGCTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggctaccattttctcattgtggttgttagttgttatcaacccctagtattgtcgcattttatttttctctatggagaaaagctgagtattatatgaatattcacattcagaacatttttgcag

Basic information

species Glycine max
transcript GLYMA07G02180.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G02180.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os01g55590.1 (Oryza sativa), 5'ss of exon 14
GTACTAATGCTGATATAATCAAGGCTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggctaccattttctcattgtggttgttagttgt-tatcaacccctagtattgtcgcattttatttttctctatggagaaaagctgagtattatatgaatattcacattcagaacatttttgcag
| || |||||||| || || || | |||||| |||||||||||||||||||||||||| || ||  |  || ||| || |  |  |    |   |||| |        ||  |   |  |       |  ||   | |  || ||| || | |||  | ||     |||    ||                             
GCACAAATGCTGACATCATGAAAGTTGGTGGTTATAAGCTGTCTGCATTAGAAATTGAGTCAGTGCTGTTACAGgtaaatatccccacactagacattattagcaaacgtactgccttgaaagaacttgctgatacgtagtactttcct-tgtggtaagaataaaggtagacaat-----------------------------
















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|254347505|gb|GR853754.1|GR853754
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|22933398|gb|BU550537.1|BU550537
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254342855|gb|GR859017.1|GR859017
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254322526|gb|GR837940.1|GR837940
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254317383|gb|GR826328.1|GR826328
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254342856|gb|GR859018.1|GR859018
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254348419|gb|GR852098.1|GR852098
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254321455|gb|GR824772.1|GR824772
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTATTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|151393469|gb|EV263344.1|EV263344
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTT
EST: gi|254347506|gb|GR853755.1|GR853755
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254321454|gb|GR824771.1|GR824771
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|254348418|gb|GR852097.1|GR852097
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT
EST: gi|9205100|gb|BE331324.1|BE331324
EST:     CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCTGTTATAATAGAG                         CATCCAGCTGTCTCAGAATGTTGCGTTATAAGCCTACCAGACATAGACTAT
genomic: CTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggct ... atttttgcagCATCCAGCTGTCTCAGAATGTTGCGTTTTAGGCCTACCAGACAAAGACTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACTAATGCTGATATAATCAAGGCTGGTGGATATAAGCTGTCTGCATTAGAAATTGAATCGGTTATAATAGAGgcaagtggctaccattttctcattgtggttgttagttgttatcaacccctagtattgtcgcattttatttttctctatggagaaaagctgagtattatatgaatattcacattcagaacatttttgcag

- - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - -  AAGCTG