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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcctttttctctttctaaatacttcctcttcttttgatgatgatgaagacgatgacttttttctttccttttttctgtttttctttgttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCTATGCACGCCGAGAGCGGCTATTGGCGGCCTAAACCCGACGGTACCATCG

Basic information

species Vitis vinifera
transcript Vv19s0085g01130.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g01130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G092152_T02 (Zea mays), 3'ss of exon 1
----gtactcctttttctctttctaaatacttcc---------tcttcttttgatgatgatgaagacgatgacttttttctttccttttt---tctgtttttctttgttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCTATGCACGCCGAGAGCGGCTATTGGCGGCCTAAACCCGACGGTACCATCG
    ||   ||| | |  ||       | ||  |         |||||  ||   | ||   ||  |   ||  |||||||||   ||     || |   |  |  || |    |||| |||||  |||| |  |||| ||| |||||   |   || |||||||| ||||||||||||||||| || ||||||||    || |||||  || |||
gcgtgtggccctctctacctgcgatgtttctctcgcgagaaaatcttcccttcg-gctgccaaattcttagagctttttctttggcttacggatcggcggtggtgggtggctgcagCCAGTGATCTCGTACACGCAGAAGACGTGGAAGACGGCGTCTGGCGAGCCGATGCACGCCGAGAGCGGGTACTGGCGGCCCCGCCCTGACGGCTCCGTCG

upper sequence: Vv19s0085g01130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ33662 (Selaginella moellendorffii), 3'ss of exon 1
--gtactc-ctttttctctttctaaatacttcctcttcttttgatgatgatgaagacgatgacttttttctttccttttttctgtttttctttgttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCTATGCACGCCGAGAGCGGCTATTGGCGGCCTAAACCCGACGGTACCATCG
  || ||  | ||||||  || |   | |||    || |||| ||  |  |    | |||   |||  || | |  |  | |  |     | | ||  |   ||| ||||| || || |  || | ||| |||||       ||||| |||||||||||||||||||| ||||| ||| |||| |  ||||| ||  |  |||
cagtgcttgcgttttcttcttgtttgttctttgcatttttttaattttttttgccatgatttgtttgctcatccggtactacgatggacttgttttcca---gCCAGTGATGGCCTACACGCAAAAGACATGGAAGGCATCGTCCGGGGAGCCTATGCACGCCGAGAGTGGCTACTGGAGGCCCAGGCCCGATGGCTCGCTCG

upper sequence: Vv19s0085g01130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ37014 (Selaginella moellendorffii), 3'ss of exon 1
---gtactc-ctttttctctttctaaatacttcctcttcttttgatgatgatgaagacgatgacttttttctttccttttttctgtttttctttgttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCTATGCACGCCGAGAGCGGCTATTGGCGGCCTAAACCCGACGGTACCATCG
   || ||  | ||||||  || |   | |||    || ||||  |  |  ||    | |||| || |||  |       | ||    |    |  |     |||| ||||| || || |  || | ||| |||||       ||||| |||||||||||||||||||| ||||| ||| |||| |  ||||| ||  |  |||
tcagtgcttgcgttttcttcttgtttgttctttgcatttttttattttttttg----ccatgatttgtttgctcatccggtactacgatggacttgttttccagCCAGTGATGGCCTACACGCAAAAGACATGGAAGGCATCGTCCGGGGAGCCTATGCACGCCGAGAGTGGCTACTGGAGGCCCAGGCCCGATGGCTCGCTCG

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|110405725|gb|EC971272.1|EC971272
EST:     TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAAGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
EST: gi|30251884|gb|CB969617.1|CB969617
EST:     TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
EST: gi|30252290|gb|CB969841.1|CB969841
EST:     TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
EST: gi|37190109|gb|CF609458.1|CF609458
EST:     TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
EST: gi|30137494|gb|CB922832.1|CB922832
EST:     TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
EST: gi|110386755|gb|EC951377.1|EC951377
EST:     AACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAAGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: AACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
EST: gi|26267560|gb|CA818623.1|CA818623
EST:     TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT
EST: gi|29783196|gb|CB349218.2|CB349218
EST:     TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAG                         CCGGTGATTGCGTATAGCCAGAAGACTTGGAAATTGAGCTCCGGCGAGCCT
genomic: TCAACTCCTTCTCCTACGGCGAGGAGCTCCTCTTCTCTCATTCGGGCAAGgtactccttt ... gttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgaagacgatgacttttttctttccttttttctgtttttctttgttgaaaaagCCGGTGATTGCGTATAGCCAGAGGACTTGGAAATTGAGCTCCGGCGAGCCTATGCACGCCGAGAGCGGCTATTGGCGGCCTAAACCCGACGGTACCATCG
           tgacttttttctttcc  CT-rich tract
                           ttttttctgttttt  TA-rich tract