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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagattttcatttgttatttgttttatcttttagcttagtcttgtttattgacttggatagtgttcttgaagGAGTGATTTGCAAGTCCCATCTTCCCCTTATTTCCCTACCTATGCACAAGGACAAGGGCCACCCCCCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGT

Basic information

species Glycine max
transcript GLYMA10G01550.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G01550.2 (Glycine max), 3'ss of exon 2
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 3'ss of exon 2
-------gtagattttcatttgt-tatttgttttatct---tttagcttagtcttgtttattgact-tggatag---tgtt--cttgaagGAGTGATTTGCAAGTCCCATCTTCCCCTTATTTCCCTACCTATGCACAAGGACAAGGGCCACCCCCCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGT
        |    ||| |    | |  |||   | | |   |||    |  | ||| |  |  | | ||||||    ||||   ||| ||   |||||| |||||||| ||||| || ||||| ||| | ||||| ||||||||||| ||||| || |||||    || |||||||||||| | || |||
gtgaaacttgagcttttaaccatgttcttgaactgtgtgattttgaactctttttgatggtcaagtctggataaatttgttactttgcagAGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCTCAAGGACAAGGACCACCTCCTATGGTGCAAGAACGTTTCCAGAGTATCATTAGT

upper sequence: GLYMA10G01550.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 3'ss of exon 2
---------------gtagattttcatttgt-tatttgttttatcttttagcttagtcttgt-ttattgacttggatagtgttctt-------gaagGAGTGATTTGCAAGTCCCATCTTCCCCTTATTTCCCTACCTATGCACAAGGA---CAAGGGCCACCCCCCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGT
               |  | ||  | ||||  | ||| ||||    ||||| ||  ||   | ||  ||| ||| ||  |  | ||       | |||  |||||||||| ||||||||||  | || |||||||| ||||||||||||   |||||||| || || |||||   ||||||||| ||||||||  |    
gtagggttttgacctgatggttcacgtttggatgttttttttggtgtttagattcttccgttattgatgatttgcatgctaattttttattttgtagGGATGATTTGCAAATCCCATCTTCGGCCTACTTCCCTACATATGCACAAGGAGGGCAAGGGCCGCCTCCAATGGTGCAGGAGCGTTTTCAGAGTGTCGTC---
















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|16279786|gb|BI943616.1|BI943616
EST:     GAATTTTGGACACCTGCGAGGAGTTCACCTCAGGATATTTGGTCCATAAG                         GAGTGATTTGCAAGTCCCATCTTCCCCTTATTTCCCTACCTATGCACAAGG
genomic: GAATTTTGGACACCTGCGAGGAGTTCACCTCAGGATATTTGGTCCATAAGgtagattttc ... gttcttgaagGAGTGATTTGCAAGTCCCATCTTCCCCTTATTTCCCTACCTATGCACAAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttttatcttttagcttagtcttgtttattgacttggatagtgttcttgaagGAGTGATTTGCAAGTCCCATCTTCCCCTTATTTCCCTACCTATGCACAAGGACAAGGGCCACCCCCCATGGTTGCGGAGCGTTTCCAGAGTGTTATAAGT
                             tattgac  putative branch site (score: 2)
                                            tgttctt  putative PPT
     tttatctttta  TA-rich tract