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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgccttttcataaacttttcccatccacacaattccacaaccttggaacgaaatctcaacatcaaaaaatttatttgtggtgttgttctgatgtgcagGCTCTCAGGTTCTATGGGAGTTCTGTTGTGACAGTCACTGGCATCACAATTCAAAACAGTCCTCAGACCCACCTCAAGTTTGATGATTGCACCGGCGTCC

Basic information

species Vitis vinifera
transcript Vv14s0066g01060.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0066g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G08730.1 (Glycine max), 3'ss of exon 3
gtaagtgccttttcataaacttttcccatccacacaattccaca-accttggaacgaaatctcaacatcaaaaaatttatttgtggtgttgttctgatgtgcagGCTCTCAGGTTCTATGGGAGTTCTGTTGTGACAGTCACTGGCATCACAATTCAAAACAGTCCTCAGACCCACCTCAAGTTTGATGATTGCACCGGCGTCC
            | | |  | |||   |||     | |||   | |  ||| |||  ||  ||  |||     |   ||||  |    |  || | ||    |||| |||||||||||||| |||  || ||| |||||||| ||||| |||||||| || ||||  || ||||| |||||||||||   ||||||    || |
-----------gtaagagtccttttgtatcgttgaacttcttaacatattgaaactgaaattct-catgtgctatgctattaattacttctttattataattagGCACTCAGGTTCTATGGAAGTGATGGTGTAACAGTCACAGGCATAACAATTCAGAATAGTCAACAAACCCATCTCAAGTTTGACTCTTGCACAAATGTTC

upper sequence: Vv14s0066g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G00230.1 (Glycine max), 3'ss of exon 3
gtaagtgccttttcataaacttttcccatccacacaatt-ccacaaccttggaacgaaatctcaacatcaaaaaatttatttgtggtgttgttctgatgtgcagGCTCTCAGGTTCTATGGGAGTTCTGTTGTGACAGTCACTGGCATCACAATTCAAAACAGTCCTCAGACCCACCTCAAGTTTGATGATTGCACCGGCGTCC
  || | |   || | |   ||    |    | | ||||  ||     ||   |  |      |   |||     | | ||  |  |    |  | ||    |||| |||||||||||||| |||  || ||| ||||| || ||||| |||||||| || ||||  || ||||| |||||||||||   ||||||    || |
-gaaattctcctttaca---ttgaaactaatataaaattgtcatgttttttttatcagcaaaaattctcacttgttctcttattaattacttctttataattagGCACTCAGGTTCTATGGAAGTGATGGTGTAACAGTGACAGGCATAACAATTCAGAATAGTCAACAAACCCATCTCAAGTTTGACTCTTGCACAAATGTTC
















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|161706245|gb|FC055437.1|FC055437
EST:     ATAAGTGGTGAACTCAGTGCAAAAATGCCAAGCACCAAGCCAACA                         GCTCTCAGGTTCTATGGGAGTTCTGTTGTGACAGTCACTGGCATCACAATT
genomic: ATAAGTGGTGAACTCAGTGCAAAAATGCCAAGCACCAAGCCAACAgtaagtgcct ... tgatgtgcagGCTCTCAGGTTCTATGGGAGTTCTGTTGTGACAGTCACTGGCATCACAATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaacgaaatctcaacatcaaaaaatttatttgtggtgttgttctgatgtgcagGCTCTCAGGTTCTATGGGAGTTCTGTTGTGACAGTCACTGGCATCACAATTCAAAACAGTCCTCAGACCCACCTCAAGTTTGATGATTGCACCGGCGTCC
                                          ttctgat  putative branch site (score: 3)
                                       ttgttct  CT-rich tract
            tcaacatcaaaaaatt  TA-rich tract