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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttccttcatttcattctcaacttgctaaagagcttcttaaatggaactatttctgtcaatatgactacaaactctaatttaacggagatatatgtatcctttgatacatattcataaagatgtagactgagaacttaaatatatgataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTG

Basic information

species Glycine max
transcript GLYMA13G40960.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaggttccttcatttcattctcaacttgctaaagagcttcttaaatggaactatttctgtcaatatgactacaaactctaatttaacggagatatatgtatcctttgatacat--attcataaagatgtagactgagaacttaaatatatgataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTG
                                                                         ||    | || | ||    || | |       |   |  ||  ||| || ||     | |    ||| ||     |   | | ||| ||| ||| | || || |||||||| || ||||| || ||||||||  | |||||||||||||||||||| ||||||||||
-----------------------------------------------------------------------gtaagtcattatatgactattatttgtaataatctcagtttatcaatttatgaactaacacaaaatgaatttgctggtggcacattataagGTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTG

upper sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 7
gtaggttccttcatttcattctcaacttgctaaagagcttcttaaatggaactatttctgtcaatatgactacaaactctaatttaacggagatatatgtatcctttgatacatattcataaagatgtagactga--gaacttaaatatatgataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTG
                                                              ||||    |||      |  | |     |  |  |   ||   |||| | ||  | | ||    | |  || |  |||  ||     |    | |  |||| || || || ||||||||||||||||| || ||||| ||||| |||||||||||||| |||||||| |||||||| |
--------------------------------------------------------------aatactgttactcttctttctcttttaaaattgaagacatgtcttgagaaattatgagaatttagcaccctcactgaagatagtctcacttgacttacagGTGTGCGGAGCTGCTATGATGAGGGGAAGCGTGTGGCTGAGACTTTGATGTTTGATTATCATAGGCAACATGGGATAG

upper sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ17446 (Selaginella moellendorffii), 3'ss of exon 6
gtaggttccttcatttcattctcaacttgctaaagagcttcttaaatggaactatttctgtcaatatgactacaaactctaatttaacggagatatatgtatcctttgatacatattcataaagatgtagactgagaacttaaatatatgataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTG
                                                                                                  ||| | |     | |||||  |     |||  ||||    || |    | ||   |   |||| ||| | || ||||| || ||||| ||||| |||||||| || ||||||||||| || || |||||||| |||||||
--------------------------------------------------------------------------------------------------gta-cgtgcaccagatatttgtct---tgtctactgcctgctcat---tgtgccgag--cagGTGTTAGGAGCTGCTACGACGAGGGAAAACGCGTGGCCGAAACGTTGATGTTTGACTATCACAGGCAGCACGGGATTG

upper sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ35029 (Selaginella moellendorffii), 3'ss of exon 6
gtaggttccttcatttcattctcaacttgctaaagagcttcttaaatggaactatttctgtcaatatgactacaaactctaatttaacggagatatatgtatcctttgatacatattcataaagatgtagactgagaacttaaatatatgataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTG
                                                                                                  ||| | |     | |||||  |     |||  ||||    || |    | ||  ||   |||| ||| | || ||||| || ||||| ||||| |||||||| || ||||||||||| || || |||||||| |||||||
--------------------------------------------------------------------------------------------------gta-cgtgcaccagatatttgtct---tgtctactgcctgctcat---tgtgtcaag--cagGTGTTAGGAGCTGCTACGACGAGGGAAAACGCGTGGCCGAAACGTTGATGTTTGACTATCACAGGCAGCACGGGATTG

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|151406393|gb|EV276208.1|EV276208
EST:     TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG                         GAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGT
genomic: TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTGgtaggttcct ... ataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGT
EST: gi|151404362|gb|EV274172.1|EV274172
EST:     TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG                         GAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGT
genomic: TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTGgtaggttcct ... ataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGT
EST: gi|213590294|gb|DB963857.1|DB963857
EST:     TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG                         GAGTTCGTAGTTGCTATGATGAGGGGAAACGGG
genomic: TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTGgtaggttcct ... ataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGG
EST: gi|19052776|gb|BM731443.1|BM731443
EST:     TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG                         GAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCTGAGACATTGATGT
genomic: TCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTGgtaggttcct ... ataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatacatattcataaagatgtagactgagaacttaaatatatgataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTG
 ctttgat  putative branch site (score: 5)
                             agaacttaaatatatg  TA-rich tract