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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaataattttcatggcatgatgtagtgattttatttttggtgataagtcaacagatcttaatttaaatatactccccagGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATACCTTGATGGTTTCAATGAAATTCACTTCTTTGGTGACAAAACTTACAAG

Basic information

species Glycine max
transcript GLYMA09G39800.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G39800.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os04g58580.1 (Oryza sativa), 3'ss of exon 8
gtaagtaata-attttcatg-gcatgatgtagtgattttatttttggtgataagtcaacagatcttaatttaaatatactccccagGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATACCTTGATGGTTTCAATGAAATTCACTTCTTTGGTGACAAAACTTACAAG
|||||   |  ||  ||||    |||    ||  ||| |   |||  |||||  |       | | | |||||          ||||| ||||| ||||| ||||||||||| |||||| ||||||| ||||| |  ||  | ||||| || |||||||| |||||||| ||||||
gtaagccttctatcctcatacaaatgtgccagaaattattggtttcatgatatttactgctgtatcactttaa----------cagGTGTTCCCACAAGGCTGGGACAAAACTTACTGCTTGAGATATCTTGAGGAATTTCAAGAAATCCATTTCTTTGGGGACAAAACCTACAAG

upper sequence: GLYMA09G39800.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os04g58580.2 (Oryza sativa), 3'ss of exon 8
gtaagtaata-attttcatg-gcatgatgtagtgattttatttttggtgataagtcaacagatcttaatttaaatatactccccagGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATACCTTGATGGTTTCAATGAAATTCACTTCTTTGGTGACAAAACTTACAAG----------
|||||   |  ||  ||||    |||    ||  ||| |   |||  |||||  |       | | | |||||          ||||| ||||| ||||| ||||||||||| |||||| ||||||| ||||| |  ||  | ||||| || |||||||| |||||||| ||||||          
gtaagccttctatcctcatacaaatgtgccagaaattattggtttcatgatatttactgctgtatcactttaa----------cagGTGTTCCCACAAGGCTGGGACAAAACTTACTGCTTGAGATATCTTGAGGAATTTCAAGAAATCCATTTCTTTGGGGACAAAACCTACAAGGTGATATGTA

upper sequence: GLYMA09G39800.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0046g03520.t01 (Vitis vinifera), 3'ss of exon 8
----gtaagtaataattttcatggcatgatgtagtgattttatttttggtg---ataagtcaacagatc-ttaatttaaatatactccccagGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATACCTTGATGGTTTCAATGAAATTCACTTCTTTGGTGACAAAACTTACAAG
    ||    | | || || ||    || | |  |||||  |    | ||    || | | ||   ||   |  |   |||        ||||||||||| ||||| |||||||| ||||||||| ||||||||||||||| |||   |||||| ||||||||||| || ||||| ||| ||
gtgagtgtccattcatctttatttt-tgctttgatgattcgaaaactagtatcaatgactgaatgtattgctggtcataatgcttgtgacagGTTTTCCCCCAAGGCTGGGACAAGACATACTGCTTGAGATACCTTGATGATTTTCCTGAAATCCACTTCTTTGGCGATAAAACATACGAG

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|151397333|gb|EV267206.1|EV267206
EST:     TTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAT                         GTTTTCCCTCAAG-TTGGGACAAAACATACTGCCTGAGATACCTTGATGGT
genomic: TTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagtaata ... tactccccagGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATACCTTGATGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgattttatttttggtgataagtcaacagatcttaatttaaatatactccccagGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATACCTTGATGGTTTCAATGAAATTCACTTCTTTGGTGACAAAACTTACAAG
                               tcttaat  putative branch site (score: 3)
                                             tactcccc  putative PPT
                         aacagatcttaattta  TA-rich tract