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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatcacgagtgatctgatctatgtagtgaaatgttgcttgaaattaattttatgttttttgaaataccgttttccacttacaagagggtcgaatcatttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGACATGTTGGATCTAGCTTTTGGGCTTACTGAAAC

Basic information

species Glycine max
transcript GLYMA13G17370.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17370.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0016g00530.t01 (Vitis vinifera), 3'ss of exon 6
gtacatcacgagtgatctgatctatgtagtgaa-atgttgcttgaaattaattttatgttttttgaa-ataccgttttcc--acttacaagagg-------gtcgaatcatttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGACATGTTGGATCTAGCTTTTGGGCTTACTGAAAC
|||| | |   || |  | || |||  | ||||  |  | || ||  |  ||||  |||| ||  |  | | | ||   |  |  ||   |  |       || || || |  ||| ||||| | ||| | ||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| |||||
gtacgttatt-gtcaagttatgtattaaatgaatgttcttctggatgtggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtc-tcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGACATGTTGGATCTGGCTTTTGGGCTTACAGAAAC
















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|7284255|gb|AW596850.1|AW596850
EST:     GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG                         GACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATGgtacatcacg ... atttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
EST: gi|254329164|gb|GR833536.1|GR833536
EST:     GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG                         GACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATGgtacatcacg ... atttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
EST: gi|22931821|gb|BU548960.1|BU548960
EST:     GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGNNNTAGTCATG                         GACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATGgtacatcacg ... atttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
EST: gi|14125826|gb|BG790264.1|BG790264
EST:     GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG                         GACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATGgtacatcacg ... atttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
EST: gi|254329165|gb|GR833537.1|GR833537
EST:     GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG                         GACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATGgtacatcacg ... atttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGAC
EST: gi|298165268|gb|HO011317.1|HO011317
EST:     GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG                         GACGTAGAACAATACAATAAATTGGAAG
genomic: GAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATGgtacatcacg ... atttgtgcagGACGTAGAACAATACAATAAATTGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgttttttgaaataccgttttccacttacaagagggtcgaatcatttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGACATGTTGGATCTAGCTTTTGGGCTTACTGAAAC
                        cacttac  putative branch site (score: 2)
     tttttgaaata  TA-rich tract