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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggtaccaagcatcttgttatagtatttatgataaatacagaggtttgcattctgtgagtaaatatcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG

Basic information

species Vitis vinifera
transcript Vv01s0010g03300.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g69210.2 (Oryza sativa), 3'ss of exon 12
---------gtggtaccaagcatcttgttatagtattta-tgataaatacagaggtttgcattctgtgagtaaatatcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG
          |||     |        || |  ||| ||   || | |  ||||  |    |  | |     ||| | || ||   | | |||||||| || || |||||||||||||| ||| | ||  | ||||||||||||||||| |||||| | |   | | ||
gtggttcccctggcgagcaatgaaccattgtcatatctagctatgagtttagagtgtcagttcttatat---aatctgtttttacatttctgcagTAAAGTTCCTGAGGAATTTGTTCTGCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTG

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA05G27900.2 (Glycine max), 3'ss of exon 11
--gtggtaccaagcatcttgttatagtatttatgataaatacagaggttt--gcattc-tgtgagtaaatatcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG
  ||  ||| || ||| |||||  | || ||    |||||  | || |||  || ||| | |    | |||  || || |||  |||||||  |||||||||||||||||||| |||||||||||||||||||||||| |||||| | ||||| |  ||  |||
gtgtattactaaacattttgttcaaataattgcagtaaatttaaagtttttagctttcctattgacatataggttcttctgtacttgcagTCGGGTCCCAGAGGAATTTGTTCCTCAGCATCCAACTAATGGAAATCCTCCAACTCTGTTTTTAGCATTGAATG

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G10870.1 (Glycine max), 3'ss of exon 12
--gtggtaccaagcatcttgttatagtatttatgataaatacagaggttt--gcattc-tgtgagtaaatatcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG
  ||  ||| || ||| |||||  | || ||    |||||  | || |||  || ||| | |    |  ||  || || |||  |||||||  |||||||||||||||||||| |||||||||||| ||||||||||| |||||| | ||||| |  ||| |||
gtgtattactaaacattttgttcaaataattgcagtaaatttaaagtttttagctttcctattgacatttaggttcttctgtacttgcagTCGGGTCCCAGAGGAATTTGTTCCTCAGCATCCAACAAATGGAAATCCTCCAACTCTGTTTTTAGCATTAAATG

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 11
--gtggtaccaagcatcttgttatagtatttatgataaatacagaggtttgcattctgtgagtaaat-atcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG
  || |||  || ||| | |||  | || ||    |||||  | || |||    | |   | | | | |  || || ||   |||||||  ||| |||||||||| ||||| |||||||||||| ||||||||||| || ||| | ||||| |  ||| |||
gtgtagtaa-aaacatttagttcaaataattgcagtaaatgtaaagtttttagctgtcctactgacttagattcttctgcacttgcagTCGGGTTCCAGAGGAATATGTTCCTCAGCATCCAACAAATGGAAATCCTCCGACTCTGTTTTTAGCATTAAATG

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|77583689|gb|DV220878.1|DV220878
EST:     ATTGATGGATGGATACCAAGGGAACAAATTTTGGGTGCCGAAGCTCTAAG                         TAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCC
genomic: ATTGATGGATGGATACCAAGGGAGCAAATTTTGGGTGCCGAAGCTCTAAGgtggtaccaa ... gtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgataaatacagaggtttgcattctgtgagtaaatatcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG
                            agtaaatatcttatt  TA-rich tract