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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actgacatcttgtaagaatggtgtaatgtgaccaatattacctaagtcttccattttaatattatctttagcttcctttctaacagttatctttatgcagGATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTACTCCCCCGAATCTGGTCACTACTATGCTTATATAAAG

Basic information

species Glycine max
transcript GLYMA08G18720.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18720.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G14400.1 (Arabidopsis thaliana), 3'ss of exon 4
actgacatcttgtaagaa-tggtgtaatgtgaccaatattacctaagtcttccattttaatattatctttagcttcctttctaacagttatcttta-tgcagGATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTACTCCCCCGAATCTGGTCACTACTATGCTTATATAAAG
     |||  ||    |  | ||| ||  |  |      ||  ||| | | |      | |  ||  ||| ||||  |   | ||  |  |    | ||||||| || ||||||||||| ||||||||||| |  |||||||| ||||| |  || || |||||||| ||||| ||||| ||  | |||
--catcatagtgctctagcttgtgaaaattttcttgctctatgtaactgtacttcccaattcctactttttgcttattggtttactctattaaaaactgcagGACCCTCAACCGGAATACAAGCTCTTTGGGATAATTGTGCACTCAGGATTTTCTCCTGAATCTGGGCACTATTATGCATACGTTAAG

upper sequence: GLYMA08G18720.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0093g00560.t01 (Vitis vinifera), 3'ss of exon 4
actgacatcttgtaagaatggtgtaatgtgaccaatattacctaagtcttccattttaatattatctttagcttcctttctaacagt--tatctttatgcagGATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTACTCCCCCGAATCTGGTCACTACTATGCTTATATAAAG
 |   |   |||  ||     ||  |||  ||   |  |   |   | ||   | |  ||    || ||| |||  | | |    ||  | |||||  ||||||| | || || || ||||| || ||||  ||||||||||||||||||||||| || || || || ||||| ||||| ||||| |||
ccactctagttgccagggcattgctatggaacacttgcttgtttgttattgtttatgtatggc-tcattaccttgttctattttggtactgtctttg-gcagGATTCACATCCCGAGTATAACCTTTTTGCTACTATTGTGCATTCAGGCTACTCACCTGAGTCAGGACACTATTATGCATATATCAAG
















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|13789471|gb|BG652062.1|BG652062
EST:     CATTTGAAGAGGTTTTGGTGCTTTCTAGCTTCATGTGCAAAGCAAGCCAG                         GATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTAC
genomic: CATTTGAAGAGGTTTTGGTGCTTTCTAGCTTCATGTGCAAAGCAAGCCAGgtatgttttg ... ctttatgcagGATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTAC
EST: gi|19052919|gb|BM731586.1|BM731586
EST:     CATTTGAAGAGGTTTTGGTGCTTTCTAGCTTCATGTGCAAAGCAAGCCAG                         GATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTAC
genomic: CATTTGAAGAGGTTTTGGTGCTTTCTAGCTTCATGTGCAAAGCAAGCCAGgtatgttttg ... ctttatgcagGATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttccattttaatattatctttagcttcctttctaacagttatctttatgcagGATCCCCAACCGGAATATAAGCTCTTTGGCACTATTGTGCATTCAGGCTACTCCCCCGAATCTGGTCACTACTATGCTTATATAAAG
                                ttctaac  putative branch site (score: 1)
                                         ttatcttt  putative PPT
       attttaatattatctt  TA-rich tract