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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAATTTGGAGCCTTTTTTGCATCGATTCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctgctgctattattacatagatgataattttgaccaataaatgcaagccttttattttattgttaatttttttgcag

Basic information

species Glycine max
transcript GLYMA14G08690.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G08690.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv18s0001g11260.t01 (Vitis vinifera), 5'ss of exon 12
GGAAATTTGGAGCCTTTTTTGCATCGATTCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctgctgctattattacatagatgataattttgaccaataaat-----gcaagccttttatt-ttattgttaatttttttgcag
|||| ||||| ||||| |||||||| |||||  |||| |||||||||||||||||||||||| ||||||| || || |||  |||    ||   |||||       |  |  | ||    ||||            |  |  | ||  |  | ||  ||||  |||||
GGAAGTTTGGTGCCTTCTTTGCATCTATTCCTTTACCAATATTTGCTGCCATATACTGTGTTCTATTTGGCATTGTTGgtgagtgagtttggctttatttttgttttagtcttgttagttaatatccttttgatgggtgtagtgttgcttctctttcttttcctgcag
















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|8283233|gb|BE020794.1|BE020794
EST:     TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGG                         CTGCTACTGGGATTTCTTTTATACAGGTTGCAAATACCAATTCCATAAGAA
genomic: TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
EST: gi|10845512|gb|BF068621.1|BF068621
EST:     TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGG                         CTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAT
genomic: TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
EST: gi|21678141|gb|BQ630492.1|BQ630492
EST:     TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGG                         CTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
genomic: TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
EST: gi|17964666|gb|BM271398.1|BM271398
EST:     GCCATATACTGTGTTTTATTTGGTATCGTGG                         CTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
genomic: GCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
EST: gi|18041036|gb|BM309330.1|BM309330
EST:     TTGCTGCCATATACTGTGTTTTATTTGGTATCGTGG                         CTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
genomic: TTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
EST: gi|10256108|gb|BE823874.1|BE823874
EST:     TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTNNGTATCGTGG                         CTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
genomic: TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
EST: gi|16345404|gb|BI970999.1|BI970999
EST:     TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGG                         CTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
genomic: TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA
EST: gi|22931108|gb|BU548247.1|BU548247
EST:     TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGG                         CTGCTACTGGGATTTCNNNTATACAGTTTGCAAATACCAATTCCATAAGAA
genomic: TCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctg ... ttttttgcagCTGCTACTGGGATTTCTTTTATACAGTTTGCAAATACCAATTCCATAAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAATTTGGAGCCTTTTTTGCATCGATTCCCCTACCGATATTTGCTGCCATATACTGTGTTTTATTTGGTATCGTGGgtaggtgctgctgctattattacatagatgataattttgaccaataaatgcaagccttttattttattgttaatttttttgcag

- - - - - - - - - - - - - - - - - - - - -  TGCTGC