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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggagctgctttcctgtgtttatttgagctctaaccattgccctttttttcccctatatttttggaagatcacttaaaattgatttctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCATTTGCTCCTAGGGATTCACACAAATCACAGATACAATTTGCACTGGAAA

Basic information

species Vitis vinifera
transcript Vv15s0048g01990.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0048g01990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G01870.1 (Glycine max), 3'ss of exon 2
gtaggagctgctttcctgtgtttatttgagctctaaccattgccctttttttcccctatatttttggaagatcacttaaaattgatttctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCATTTGCTCCTAGGGATTCACACAAATCACAGATACAATTTGCACTGGAAA
|||||| ||  |||||||| |   ||||||  || |  | |    ||| ||       ||   |   || ||   ||          |   || ||||||||||||||||| || || ||||||  ||||  ||| |||||  | || |||||||| || |||||||||||||||||||||||||||||||| ||||
gtaggatctattttcctgtttccttttgagaccttattactagaatttcttgtt----tagcatgaaaatattttttg---------tgctttacagGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA

upper sequence: Vv15s0048g01990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G08360.1 (Glycine max), 3'ss of exon 2
gtaggagctgctttcctgtgtttatttgagctctaaccattgccctttttttcccctatatttttggaagatcacttaaaattgatttctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCATTTGCTCCTAGGGATTCACACAAATCACAGATACAATTTGCACTGGAAA
|| ||| ||  |||||||| |   ||||||  || |  | |    ||| ||       ||   |   || ||  |||         || | || ||||||||||||||||| || || || |||  ||||  ||| |||||  | || |||||||| || |||||||||||||||||||| ||||||||||| ||||
gtgggatctattttcctgtttcattttgagaccttattactagtatttgttgtt----tagcatgaaaatatttctt---------ttgttttacagGTTGCCAGTTTTGGAGGATATTTGCTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATTCAATTTGCACTTGAAA
















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|110710132|gb|EE086201.1|EE086201
EST:     TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGG                         GTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
genomic: TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGGgtaggagctg ... tctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
EST: gi|37187830|gb|CF607183.1|CF607183
EST:     TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGG                         GTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
genomic: TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGGgtaggagctg ... tctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
EST: gi|110687173|gb|EE064354.1|EE064354
EST:     TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGG                         GTTGCCAGTTTTGGGGGGTACTTACTGAATCAAGGCATTTTAACTTTCTCA
genomic: TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGGgtaggagctg ... tctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
EST: gi|32249709|gb|CD715528.1|CD715528
EST:     TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGG                         GTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
genomic: TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGGgtaggagctg ... tctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
EST: gi|110365443|gb|EC928440.1|EC928440
EST:     TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGG                         GTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA
genomic: TTCCTTTAACTGGTGGAGTTCTAAGGACGGCTCTTGATATGGGATGTGGGgtaggagctg ... tctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctttttttcccctatatttttggaagatcacttaaaattgatttctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCATTTGCTCCTAGGGATTCACACAAATCACAGATACAATTTGCACTGGAAA
                                     aattgat  putative branch site (score: 4)
                                           tttctcttgc  CT-rich tract
                               acttaaaattgattt  TA-rich tract