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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttttgctaacaaagtaatagcctgcataagttgctcttgtatttggtttttgattcagctctgatcgtttaaaatgaagggcagTACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGACCTTTCTGGTCCTTGTTTGCTG

Basic information

species Vitis vinifera
transcript Vv05s0049g01850.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01850.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G34240.1 (Glycine max), 3'ss of exon 2
-------------gtgagttttgctaacaaagtaatagcctgcataagttgctcttgtatttggtttttgattcagctctgatcgtttaaaatgaagggcagTACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGACCTTTCTGGTCCTTGTTTGCTG
             ||  |||||| |    | | | |   | | ||   ||||| |||  ||    | |||||||| |  |  |  |||||| | |||||||||||||| ||||||||  ||||||| || ||||||||||| ||||||||||| |||||| ||||| ||||||||
gtaactttcctctgtaggttttgat--ttatgcattgaacagtatt--ttgctattgctttgaaatattgattcaacatttgttctttaaatt-aagggcagTACGTTAAAACATGGAGTATCACTTCGTACACTTATTCGCAAGAGTGCTGAGCTTTCTTGTCCTGGTTTGCTG

upper sequence: Vv05s0049g01850.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G33400.1 (Glycine max), 3'ss of exon 2
-------------gtgagttttgctaacaaagtaatagcctgcataagttgctcttgtatttggtttttgattcagctctgatcgtttaaaatgaagggcagTACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGACCTTTCTGGTCCTTGTTTGCTG
             ||  |||||| |    | | | |   | | ||   ||||| |||  ||    | |||||||| |  |  |  |||||| | |||||||||||||| ||||||||  | ||||| || ||||||||||| ||||||||||| |||||| ||||| ||||||||
gtaactttcctctgtaggttttggt--ttatgcattgaacagtatt--ttgctattgctttgaaatattgattcaacatttgttctttaaatt-aagggcagTACGTTAAAACATGGAGTTTCACTTCGTACACTTATTCGCAAGAGTGCTGAGCTTTCTTGTCCTGGTTTGCTG

upper sequence: Vv05s0049g01850.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G21320.1 (Glycine max), 3'ss of exon 3
gtgagttttgctaacaaagtaatagcctgca----------taagttgctcttgtatttggtttttgattcagctctgatcgtttaaaatgaagggcagTACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGACCTTTCTGGTCCTTGTTTGCTG
|| | |||||||  | |  |  ||  |||            ||   || | || | ||    | |||||||| |  |  |  ||  || ||||||||||||||||||||||||| ||||| || || |||||| |||| || |||| | | |||||||||||| ||||||||
gtaa-ttttgctttctagtttttaatctgtgcattgaactgtattgtgttgttatgttgaaatattgattcaacattacttcttcgaa-tgaagggcagTACGTTGAAACATGGCATATCGCTTCGTACACTTCTTCGCAACAGTGATAAACTTTCTGGTCCTGGTTTGCTG

upper sequence: Vv05s0049g01850.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G05590.2 (Arabidopsis thaliana), 3'ss of exon 2
---gtgagttttgctaacaaagtaatagcctgcataagttgctcttgtatt-tggtttttgat-tcagctctgatcgtttaaaatgaagggcagTACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGACCTTTCTGGTCCTTGTTTGCTG
     ||  |||| |  |       || | ||  |     | | | | ||| ||||||||| | | | || |     | |   ||||||||||||||||||||||||||||||||||| || || ||| | || |  ||||  || ||| ||||||||||||| |||
gtaaggaagtttgttttcg------tatcttgtttggag-gttttggaattgtggtttttggtgttaacttt---tttatcggatgaagggcagTACGTTGAAACATGGTATATCACTTCGTACGCTTTTGCGAAGAAGTGGAGAGCTTCCTGGTCCTTGTTTACTG

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|122689747|gb|EC943735.1|EC943735
EST:     TCATCCCTTCCTAATATAGTTAAAGGGTGCCAATGGGTGCTGCTGTACAG                         TACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGA
genomic: TCATCCCTTCCTAATATAGTTAAAGGGTGCCAATGGGTGCTTCTGTACAGgtgagttttg ... tgaagggcagTACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgctcttgtatttggtttttgattcagctctgatcgtttaaaatgaagggcagTACGTTGAAACATGGTATATCACTCCGCACACTTATTCGTAAGAGTGCTGACCTTTCTGGTCCTTGTTTGCTG
                             ctctgat  putative branch site (score: 4)
                                      tttaaaatgaa  TA-rich tract