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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagatgatcaaactttccttgactgttttattctacttattatatgactcaataataattatattttatacttctttttaatagtatacttcttcagcttaacataatacttgattgcaaagcaattatttgaagtcttctatttgattgcatctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG

Basic information

species Glycine max
transcript GLYMA13G20780.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G20780.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g41590.1 (Oryza sativa), 3'ss of exon 6
gtcagatgatcaaactttccttgactgttttattctacttattatatgactcaataataattatattttatacttctttttaatagtatacttcttcagcttaacat-aatacttgattgcaaagcaattatttgaagtctt-ctatttgattgcatctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                                                |||| |  ||  |||   |   | | | |  |||   |  | | |  || |  ||    | |||| || ||| || |  ||||||   ||  | ||     || || || ||||| ||||||||||| ||||| ||||| || ||||||||| ||| || |||||| || |||||| |||
---------------------------------------------------------------gatttcaagctgatttcgtactatgtccgttctcaatatttcgtcagcacctttttctttaacaat-atctgatgtttagctatttatctgtctgtac---cagATCACTGGTTGCAAACTTATCAGCAGCAAACTGCTACAAATCTGAGCATCTGAAGAAACCGGAGAACTGGGCACTAG

upper sequence: GLYMA13G20780.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
gtcagatgatcaaactttccttgactgttttattctacttattatatgactcaataataattatattttatacttctttttaatagtatacttcttcagcttaacataatacttgattgcaaagcaattatttgaagtcttctatttgattgcatctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                     |||    | | | |    ||   | |    | ||| ||   | | ||       || |||||   ||||||     ||   ||||       || ||   ||||||||       ||| |  ||  ||||| ||  ||||||||||||| |||||||||||||| |||||||| ||||||| ||| || ||||| |||||| |||
------------------------------------gcttcccgtgtca-ttgtcaagggtca----tcatattttcctgtgat-------tttttcag---aacata-----tgccagcaacctgtccatgtgctctcttctat-------cattt--atgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG

upper sequence: GLYMA13G20780.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0019g04480.t01 (Vitis vinifera), 3'ss of exon 6
gtcagatgatcaaactttccttgactgttttattctacttattatatgactcaataataattatatttt-atacttctttttaatagtatacttcttcagcttaac-ataatacttgattgcaaagcaattatttgaagtcttctatttgattgcatctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                                  | ||||  ||  | |     | ||    | || || || |    |||  | ||| |  | | ||||   ||||           | ||||| | |||||     ||| ||  |  ||||| ||  ||||||||||||| |||||||||||||| ||||| || || |||| ||| || ||||| ||||||||||
-------------------------------------------------tttaataggaagaagagcaagaaaccgagtattgattgtttggcactt--gtttatctgtcaaactttgctgca-----------tcaagtcctatattta---tcattta--tgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCCGAACACTTGAAGAGGCCTGAAAACTGGGCATTAG

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|209708530|gb|BW668141.1|BW668141
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|209710379|gb|BW681278.1|BW681278
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGC
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGC
EST: gi|13311384|gb|BG405035.1|BG405035
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGC
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGC
EST: gi|10845490|gb|BF071116.1|BF071116
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|192324906|gb|FK016092.1|FK016092
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|213598835|gb|DB968306.1|DB968306
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|209711575|gb|BW676820.1|BW676820
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|193667347|gb|FK609753.1|FK609753
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCGAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|151405346|gb|EV275160.1|EV275160
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|207703119|gb|GD684897.1|GD684897
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|151404672|gb|EV274486.1|EV274486
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|11687342|gb|BF594982.1|BF594982
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|213611486|gb|DB959196.1|DB959196
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|9987590|gb|BE661698.1|BE661698
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|213597865|gb|DB958246.1|DB958246
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|151405163|gb|EV274977.1|EV274977
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|19937792|gb|BQ081423.1|BQ081423
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|12773014|gb|BG237941.1|BG237941
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|14126129|gb|BG790567.1|BG790567
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|308098710|gb|HO760451.1|HO760451
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|15199748|gb|BI423990.1|BI423990
EST:     GTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|213591667|gb|DB969767.1|DB969767
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
EST: gi|213587888|gb|DB959712.1|DB959712
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATT
EST: gi|213605470|gb|DB964609.1|DB964609
EST:     GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT
genomic: GACAATACACCTACTGGAACTTGTGCTGTTTGTGTGGTTGGCGGTGAAAGgtcagatgat ... ctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgattgcaaagcaattatttgaagtcttctatttgattgcatctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                           atctaaa  putative branch site (score: 3)
               aattatttgaa  TA-rich tract