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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatagtacctagataaaccacttctgtttactgtttctccttgtgttatatgttccatgctatgactatgttcatccaagcagATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCCGAACGAAATACTGGAAAGTATCCTGATGTTGTTGTTGCAGTTTCAAG

Basic information

species Vitis vinifera
transcript Vv06s0061g00690.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os10g34750.2 (Oryza sativa), 3'ss of exon 5
gtaatagtacctagataaaccacttctgtttactgtttctccttgtgt---tatatgttccatgctatgact-atgttcatccaagcagATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCCGAACGAAATACTGGAAAGTATCCTGATGTTGTTGTTGCAGTTTCAAG
      ||||  | | |  |||    || |||   |||||  |  | |   | |||| |||| |  |    | ||  |     | | ||||||| | |  ||| ||||| ||||| ||||| |||||||| ||||| ||  | || ||||| ||||||||||||||||||| ||| ||||| ||
------gtacgaaca-agcccatgattggttagcttttcttatattctgaatttatgatcca-gtaacacttgatactttggaatgaagATACATTGCCTGGAAGATGGATCAGTAGAGATCTATAGTCGTAATGCTGAGAGGAACACTGGGAAGTATCCTGATGTTGTTGATGCGGTTTCTAG

upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G071304_T01 (Zea mays), 3'ss of exon 5
---gtaatagtacctagataaaccacttctgtttactgtttctccttgtgttata-tgttccatgctatgact--atgttcatccaagcagATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCCGAACGAAATACTGGAAAGTATCCTGATGTTGTTGTTGCAGTTTCAAG
     |  | | |  |        |  |||  |       |    |||    ||  |  || | |  |  |||  ||  |  |  |   ||||||| | || ||||||||| ||||| ||||| |||||||||||||| ||| |||| || ||||||||||| |||||||||| ||||||||| ||
gtatcatcaatcctcacggcgtttagctcttctagtataatacttttgacccatgctcatctaagtcaacacttcataattttgaatttagATACATTGCATGGAGGATGGTTCAGTAGAGATTTATAGTCGCAATGCTGAAAGAAACACCGGAAAGTATCCAGATGTTGTTGATGCAGTTTCTAG

upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G19880.1 (Glycine max), 3'ss of exon 5
----------gtaatagtacctagataaaccacttctgttt---actgtttctccttgtgttatatgttccatgctatgac--tatgttcatccaagcagATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCCGAACGAAATACTGGAAAGTATCCTGATGTTGTTGTTGCAGTTTCAAG
          ||  |  |  ||  ||   | | || |   |   |    |   |||  || ||  | ||   ||| || ||  ||  |  ||  |  |||||||| |||  |||| |||| ||||||||||| || ||| |  |||| ||||| |||||||| |||| |||||||||||||| ||| ||||||||
tatagttccggtcctcttctcttcatggtcaaattttccatcagaaacatggccctcatgatacttattatgtgcaataacattagctgtattgagacagATACATTACCTGGAGAATGGCTCAGTTGAGATTTACAGTAGACATGCAGAACGGAATACTGGGAAGTTTCCTGATGTTGTTGCTGCTGTTTCAAG

upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G08600.1 (Glycine max), 3'ss of exon 5
gtaatagtacctagataaaccacttctgtttactgtttctccttgtgttatatgttccatgctatgac--tatgttcatccaagcagATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCCGAACGAAATACTGGAAAGTATCCTGATGTTGTTGTTGCAGTTTCAAG
|| ||| ||| | |  |||    |||  |                || ||  | ||   ||| || ||  ||  |  ||  || |||||||| |||  |||| |||| ||||||||||| || ||| | ||||| ||||| |||||||| |||| ||||||||||||||  || ||||||||
gtgatactacatggtcaaatt--ttccatcagaaac--------atgatacttattatgtgcaataacattagctgtattgaaacagATACATTACCTGGAGAATGGATCAGTTGAGATTTACAGTAGAAATGCAGAACGGAATACTGGGAAGTTTCCTGATGTTGTTGCCGCTGTTTCAAG

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|71857605|gb|DT006660.1|DT006660
EST:     AGGATATGGAATTCACCTGTGAATACAAATATGATGGAGAACGTGCTCAG                         ATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCTGAA
genomic: AGGATATGGAATTCACCTGTGAATACAAATATGATGGAGAACGTGCTCAGgtaatagtac ... atccaagcagATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCCGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgtttctccttgtgttatatgttccatgctatgactatgttcatccaagcagATACACTACAAGGAGGATGGGTCAGTTGAGATATATAGTCGCAATGCCGAACGAAATACTGGAAAGTATCCTGATGTTGTTGTTGCAGTTTCAAG
                                          ttcatcc  CT-rich tract
                 ttatatgtt  TA-rich tract