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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctataaattcttatatggtcatttcatttctcatggatggcaactttttatctgataaatttgttgcacaatcttctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT

Basic information

species Vitis vinifera
transcript Vv17s0000g01720.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os07g46720.1 (Oryza sativa), 3'ss of exon 6
gtaagtttctataaattcttatatggtcatttcatttctcatggatggcaactttttatctgataaatttgttgcacaatcttctgtg---tgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT
    |||  |  | |   || |  |       |||   | |   ||||    || |||||||||  || | || | || |    ||||   | |||||   || ||| | ||||| ||  |||| || || ||||||||||||||| |||| || || ||||||||||| |||||||| || || ||| |||||||
----gttagttgagaactttgttag-------catgctttacacatgg----ttattatctgatctatgtttttctcatttgattgtggattccagAGTTGAATACCTCAGTTTTCGGTCAGAAGCTGCGCGAACAAGTTGAGGAGAGACTAGACTTCTATGACAAGGGTATTGCACCGCGTAAGAACCTTGATGT

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g22880.1 (Oryza sativa), 3'ss of exon 6
gtaagtttctataaattcttatatggtcatttcatttctcatggatggcaactttttatctgataaatttgttgcacaatcttctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT
|| |||| | |||  |   | |    |  ||  || ||   | | |       ||||     |  || ||| ||| ||   ||  |  | |||||      ||| | || |||||| | || || ||||| ||||||||||||||  | || || |||||||||||  |||||||||| |||||| |||||||
gttagttgc-atagttctgtttccaat--ttgtatgtccactagttactg--cttttgctgaaagaacttgctgc-catattttggaattcagAGTCAGCTACCGCAGTCTTTGGGCAAAAGCTTCGTGAGCAAGTTGAGGAGCGGTTAGACTTCTATGACAAGGGTGTTGCACCTCGTAAAAACCTTGATGT

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 6
gtaagtttctataaattct--tatatggtcatttcatttctcatggatggcaactttt----tatctgataaatt-tgttgcacaat-cttctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT
|| ||||     ||  |||   |   |    |||  | |   | |  |    | |        ||||  |  ||| | ||| ||  | ||  ||  | |||||  || |||| | || |||||| | ||  | ||||| ||||| |||||| |||| ||||| |||||||||||  |||| ||||| |||||| |||||||
gttagttcgaggaagctctgtcaccggactgttttgtatgctaagtttactcattccaaaagcatctttttgattgttttgtactgtactcttgacttcagAGGCTAGCACCTCTGTCTTTGGGCAAAAGTTGCGTGAGCAAGTCGAGGAGAGACTGGAATTCTATGACAAGGGTGTTGCGCCTCGTAAAAACCTTGATGT

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G11560.1 (Glycine max), 3'ss of exon 6
gtaagtttctataaattcttatatggtcatttcatttctcatggatggcaactttttatctgataaatttgttgcacaatcttctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT
||  ||||||   | ||    | | |  || | ||  || |    | | | ||  ||   || ||   |  ||      |  | ||  |||||| ||    || ||   ||||||||||||||||||||| ||||||||||||||||| || ||||||||||||||| |||| ||||| || ||||| |||||
gtttgtttcttacatttaaattttagcaatcttatgccttact--tagtacctcattgcttgttaggatgattttgttgtactgtg-atgcagAAAGGGGTACTACTACTTTTGGGGAGAAACTCCGTGAGCAAGTTGAGGAGCGACTTGATTTTTATGACAAGGGAGTTGCCCCTCGTAAGAACATAGATGT

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G03150.1 (Glycine max), 3'ss of exon 6
gtaagtttctataa-attc-ttatatggtcatttcatttctcatggatggcaactttttatctgataaatttgttgcacaatcttctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT
||  |||||| | | ||||  | ||     || ||||  ||  |  || |||  || | ||    ||  |||||  | ||||         ||||| ||    || || ||||||||||||||||| ||||| ||||||||||| ||||| || ||||||||||||||| |||| ||||| || ||||| |||||
gtttgtttctttcatattcactttagcaatatctcatggct-gtacatagcactttgtcatgatttagctttgtacctcaat---------gcagAAAGGGGTACTACTGTTTTTGGGGAGAAACTGCGTGAGCAAGTTGAGGAACGACTTGACTTTTATGACAAGGGAGTTGCCCCTCGCAAGAACATAGATGT

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G13770.1 (Glycine max), 3'ss of exon 6
gtaagtttctataaattcttatatggtcattt---catttctcatggatg---gcaactttttatctgataaatttgttgcacaatcttctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT
    |||| |     |||||  ||  ||| ||   ||| | |||||| ||     | |  ||| ||  || | ||||| | |      |||   |||||| |     || || ||||||||| ||||||||||||| ||||||||||| ||||| || ||||||||||||||| |||| ||||| || ||||| |||||
----gtttgt-----ttcttgcatattcactttagcatatttcatggctgtacatagccctttgtc--atgattttgtggta------tcttaatgcagAAAAGGGTACTACTGTTTTTGGGCAGAAACTCCGTGAGCAAGTTGAGGAACGACTTGACTTTTATGACAAGGGAGTTGCCCCTCGCAAGAACATAGATGT

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|32459972|gb|CD801146.1|CD801146
EST:     TTATCTTGCAAACAAGTGTTCCATTGCTTCTCGTATTGACTGTTTTGCTG                         AGAGTAACACCACGGTTTTTGAGGAGAAACTCCGTGAACAAGTTGAGGAGC
genomic: TTATCTTGCAAACAAGTGTTCCATTGCTTCTCGTATTGACTGTTTTGCTGgtaagtttct ... ctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGC
EST: gi|33405708|gb|CF211335.1|CF211335
EST:     TTATCTTGCAAACAAGTGTTCCATTGCTTCTCGTATTGACTGTTTTGCTG                         AGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGC
genomic: TTATCTTGCAAACAAGTGTTCCATTGCTTCTCGTATTGACTGTTTTGCTGgtaagtttct ... ctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatggatggcaactttttatctgataaatttgttgcacaatcttctgtgtgcagAGAGTAACACCACGGTTTTTGGGGAGAAACTCCGTGAACAAGTTGAGGAGCGACTCGAATTTTATGACAAGGGAATTGCACCTCGGAAAAACATTGATGT
                   atctgat  putative branch site (score: 4)
                                         tcttctgt  putative PPT
           aactttttatctgata  TA-rich tract