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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgttccaatgttaacttttgtttggttttcctggtccatttttactgaactgcaaagtattatcttagccattcttgctctgctggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATTACTTAACAATCGCATATACGATACTAAATTTGAGTCTCAATTTTATATG

Basic information

species Vitis vinifera
transcript Vv16s0050g00490.t01
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g00490.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA10G37900.1 (Glycine max), 3'ss of exon 21
gtccgttccaatgttaacttttgtttggttttcctggtccatttttactgaactgcaaagtattatcttagccattcttgctctgctggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATTACTTAACAATCGCATATACGATACTAAATTTGAGTCTCAATTTTATATG
            ||||    || |     || | |  ||   ||  | |    |   || | |||  | | |  ||||   | | ||| ||   ||| |||||| ||||||||||||||||||||||||||||||||||||| ||||| || ||  |||| ||||| ||||| ||||||||||||||||||||||| 
------------gttagtaattat--aaattccattatctgcttacattatctttgcaacttttagatgatctgttctcagtattctgattt--cagATACAAGATCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATACCATTTCTAAATGATCGGATATATGATACAAAATTTGAGTCTCAATTTTATATC

upper sequence: Vv16s0050g00490.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA16G30190.2 (Glycine max), 3'ss of exon 21
gtccgttccaatgttaacttttgtttggttttcctggtccatttttactgaactgcaaagtattatcttagccattcttgctctgctggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATTACTTAACAATCGCATATACGATACTAAATTTGAGTCTCAATTTTATATG
         | |  ||| |||| ||  || |   | |||   |||   | |  || |  |  || ||| ||          | | ||| || ||||| |||||| |||||||||||||||||||| ||||||||||||| || || || || ||  | || ||||| || |||||||||||||||||||||||||||
------gtgagttataaattttatt--gtgtcatttgtc---tttcgataatttggatggccttttctcag----------tattctgattttgcagCTACAAGATCAAATTGGAAGATGGAGCTCAAATAAAACCTCACATACCTTTGCTAAATGACCGGATATATGACACTAAATTTGAGTCTCAATTTTATATG

upper sequence: Vv16s0050g00490.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA09G25250.1 (Glycine max), 3'ss of exon 21
gtccgttccaatgttaacttttgtt-tggttttcctggtccatttttactgaactgcaaagtattatcttagccattcttgctctgctggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATTACTTAACAATCGCATATACGATACTAAATTTGAGTCTCAATTTTATATG
                   |  ||| |   |||  | |||  ||||   |  |       | || | |||     ||||   |   | | || ||||| |||||  |||||||||||||||||||| ||||||||||||| || || || || ||  |  | ||||| || |||||||||||||||||||||||||||
------------------gtgagttataaattttattgtcatttttcgttcgataatttgg-atgacctt-----ttctcagtactccgattttgcagCTACAACATCAAATTGGAAGATGGAGCTCAAATAAAACCTCACATACCTTTGCTAAATGACAGGATATATGACACTAAATTTGAGTCTCAATTTTATATG

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|110356805|gb|EC919900.1|EC919900
EST:     GATCGTGATAAACTACCCTCAGGCAAACAGATTCTAGCATTGACATTAAC                         TTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATT
genomic: GATCGTGATAAACTACCCTCAGGCAAACAGATTCTAGCATTGACATTAACgtccgttcca ... ggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATT
EST: gi|30305348|gb|CB982142.1|CB982142
EST:     GATCGTGATAAACTACCCTCAGGCAAACAGATTCTAGCATTGACATTAAC                         TTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATT
genomic: GATCGTGATAAACTACCCTCAGGCAAACAGATTCTAGCATTGACATTAACgtccgttcca ... ggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATT
EST: gi|110358933|gb|EC919587.1|EC919587
EST:     GATCGTGATAAACTACCCTCAGGCAAACAGATTCTAGCATTGACATTAAC                         TTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATT
genomic: GATCGTGATAAACTACCCTCAGGCAAACAGATTCTAGCATTGACATTAACgtccgttcca ... ggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttactgaactgcaaagtattatcttagccattcttgctctgctggttctgcagTTACAAGTTCAAATTGGAAGATGGAGCTGAAATAAAACCTCAAATTCCATTACTTAACAATCGCATATACGATACTAAATTTGAGTCTCAATTTTATATG
              aaagtattatctta  TA-rich tract