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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgatagattcttcaagtgagggtattttaattagacatggttactttgtcttataatttcagtatggcttatctgatctaatttgtgcgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA

Basic information

species Glycine max
transcript GLYMA02G02400.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G02400.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g08960.1 (Oryza sativa), 3'ss of exon 3
---gtttgatagattcttcaagtgagggtattttaattagacatggttactttgtcttataatttcagtatggcttatctgatctaatttgtgcgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA
    |||  ||  || ||    |   | | || ||  |        ||    | | ||| |  || |   || |  ||    | || || |  | ||   |||| || || ||| | ||||||||||| || || ||||||||||| || |||||||||||||| ||||||||||  ||||||||||| ||||
tcctttttgtat-ttattggcattttgttcttgtacgtgtcaccaattgtactcttttacatgttaacactgtcaaattatgtttacttcgc-catcgc-cagGTACGTTCAAGCTGACACTTCAGTTTACTGAAGATTATCCTAACAAGCCACCTACAGTGCGATTTGTTTCTCGGATGTTTCATCCTAACA

upper sequence: GLYMA02G02400.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0026g01770.t01 (Vitis vinifera), 3'ss of exon 4
gtttgatagattcttcaagtgagggtattttaattagacatggttactttgtcttataatttcagtatggcttat-ctgatctaatttg--tgcgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA
 |   || | ||  |    ||    | |  |  |||     ||  ||||    ||||  ||   || |   | || ||| | |  | ||  ||  || |||||| || ||||| || || |||||||| || ||||||||||| ||||| ||||| || || ||||||||||||  |||||| ||||| || |
-tacaattgttttgtttgatgtatttttcgtggtta--tgagggcacttatgattattgttggtgtgtatttaatgctgctatgctctgattgaatccttcagGTACGTTTAAATTGACGCTTCAGTTTACAGAGGATTATCCGAATAAGCCACCAACTGTACGCTTTGTTTCTAGAATGTTCCATCCAAATA
















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|22541678|gb|BU091521.1|BU091521
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|15337304|gb|BI497960.1|BI497960
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|192329123|gb|FK019738.1|FK019738
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|192330836|gb|FK021609.1|FK021609
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|298164392|gb|HO014037.1|HO014037
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|298180824|gb|HO022263.1|HO022263
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|11413307|gb|BF425318.1|BF425318
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|298178672|gb|HO024407.1|HO024407
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|151394718|gb|EV264589.1|EV264589
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|298179938|gb|HO025153.1|HO025153
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|151405335|gb|EV275149.1|EV275149
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACGTTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|254334254|gb|GR849172.1|GR849172
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|298175146|gb|HO014949.1|HO014949
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
EST: gi|5509647|gb|AI856205.1|AI856205
EST:     ACCGGATGACACCCCCTGGGATGGAG                         GCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC
genomic: ACCGGATGACACCCCCTGGGATGGAGgtacaataat ... cgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actttgtcttataatttcagtatggcttatctgatctaatttgtgcgtctttcagGCACATTTAAGTTAACACTTCAGTTCACCGAGGATTATCCTAATAAACCACCTACAGTGCGCTTTGTTTCTCAAATGTTTCATCCCAACA
                                 atctaat  putative branch site (score: 3)
                                             cgtctttc  putative PPT
        ttataatttcagtat  TA-rich tract