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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcttcaatttcatccaacgaatcaaaagattcaaactttacgttcaaaactcaaatgggtttgttttactttttattttgtattatttactttttgtatttattatgatttttctttatttttgtgtggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACAGGAAGTATCCGAACGGCGCGAGGCCAAACAGGGCGGCGACATCTGGGTA

Basic information

species Glycine max
transcript GLYMA13G35560.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G35560.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g37920.1 (Oryza sativa), 3'ss of exon 1
gtatgttcttcaatttcatccaacgaatcaaaagattcaaactttacgttcaaaactcaaatgggtttgttttactttttattttgtattatttactt-tttgtatttattatgatttttctttatttttgtgtggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACAGGAAGTATCCGAACGGCGCGAGGCCAAACAGGGCGGCGACATCTGGGTA
                                      |   |  | ||  |   ||| | | | |   |    |  |  || | || |  ||||||| |||||     |||||     |   |   |  || ||  |  |||  |||||    || ||||||||||||||||||||||| |  ||||||||| | ||||| |||||||| ||| |||| ||| |||||||||| || |||||
-------------------------------------tagcttggatgtgtagtgctcga-tcgatcgatcgatcgatcgatctggtgtcgtttacttgtttgtgcgatttatg---cgtgcatgcatcggtttg--tatcagAGAAGGCGAACTTCGGGGAGCAGGAGTGGTATTTCTTCAGCCCGAGGGACCGCAAGTACCCGAACGGGGCGCGGCCGAACCGGGCGGCGACGTCGGGGTA

upper sequence: GLYMA13G35560.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G179885_T04 (Zea mays), 3'ss of exon 2
gtatgttcttcaatttcatccaacgaatcaaaagattcaaactttacgttcaaaactcaaatgggtttgttttactttttattttgtattatttactttttgtatttattatgatttttctttatttttgtgtggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACAGGAAGTATCCGAACGGCGCGAGGCCAAACAGGGCGGCGACATCTGGGTA
                                    |     |  |   |   | ||   |||  |   | |  |||  |||| |     |   ||| | ||      |    ||   |  ||   |   | ||| |  ||| ||||||  | || || |||||||||||||| ||||| |  ||||||||| | ||||| || ||||| ||| |||| |||||||||||||| || || ||
-----------------------------------ctttgcatacatactgctagcttccatgcatgcatgtgccttactattct----cacgcactgtgtggccgcctggacatgcatggttggatac-tctggat--cagATAAGGCGACATTCGGCGAGCAGGAGTGGTACTTCTTCAGCCCGAGGGACCGCAAGTACCCCAACGGAGCGCGGCCGAACAGGGCGGCGACGTCCGGCTA

upper sequence: GLYMA13G35560.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S15_200V6.1 (Physcomitrella patens), 3'ss of exon 1
gtatgttcttcaatttcatccaacgaatcaaaagattcaaactttacgttcaaaactcaaatgggtttgttttactttttattttgtattatttactttttgtatttattatgatttttctttatttttgtgtggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACAGGAAGTATCCGAACGGCGCGAGGCCAAACAGGGCGGCGACATCTGGGTA
                                         |    ||   | |    |     || |  |  |  ||  |     |  ||  |  ||   | | ||   |    |  | |    |||||      | | || ||||||   ||| || ||   ||| |||||||||||| |||||||| | || |||||||||||||| || ||||| || || || ||| |    |||||
-----------------------------------------cccaccggaaacagtatagtaatgtcttatcgaacttgaaaagattgctacattattccggcagtttccact-ctgatgtgcgattttgcaaccattgtagATAAGGCGCTGTTCGGCGACAGGGAATGGTATTTCTTTTCTCCGAGGTATAGAAAGTATCCGAACGGTGCAAGGCCCAATAGAGCTGCGGCGAGCGGGTA

upper sequence: GLYMA13G35560.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S164_25V6.1 (Physcomitrella patens), 3'ss of exon 2
gtatgttcttcaatttcatccaacgaatcaaaagattcaaactttacgttcaaaactcaaatgggtt-tgttttactttttattt-tgtattatttactttttgtatttattatgatttttctttatttttgtgtggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACAGGAAGTATCCGAACGGCGCGAGGCCAAACAGGGCGGCGACATCTGGGTA
                                            || |   | |   |||    ||  |    |||||   |    |     | ||    | |||     | |  | |  |  ||| || ||    |    ||| ||||||   ||| || |||   || |||||||||||| |||| |||||||||||||| || || ||||| ||||| ||||| || ||  |   ||| ||
-------------------------------------------atatgacaacagtgcaatcatgtcgtaacatacttgcaaaggatccccaaattgtagtctgtggcc-taacaagtgatgcttaattgtgcaacgagtacagATAAGGCGTTGTTCGGAGAGAGAGAATGGTATTTCTTTTCTCCAAGGGACAGGAAGTACCCCAATGGCGCCAGGCCCAACAGAGCTGCCGCGAGTGGCTA

upper sequence: GLYMA13G35560.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S259_83V6.1 (Physcomitrella patens), 3'ss of exon 1
gtatgttcttcaatttcatccaacgaatcaaaagattcaaactttacgttcaaa--actcaaatgggtttgttttactttttattttgtattatttactttttgtatttat-tatgatttttctttatttttgtgtggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACAGGAAGTATCCGAACGGCGCGAGGCCAAACAGGGCGGCGACATCTGGGTA
                                          || | | |  ||  | |  ||| |    || |   |   |   | | |  |||  |  |    | |||  | ||  | || |    |   |  |  |  ||||  |||||    || ||||||   ||||||||||||||| | || |||||||||||||| || || ||||| ||||| ||||| || ||  ||   || ||
------------------------------------------ttgatgatgcaatgagtttaatcg-cacgtatagatgactcgctgggagaattctcactgaaaagttaaatgtggatgttttcccatccgggataat--gcagACAAGGCATTATTCGGGGAGAGAGAGTGGTATTTCTTTTCGCCAAGGGACAGGAAGTACCCCAATGGCGCAAGGCCCAACAGAGCCGCCGCAAGCGGCTA

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|208231960|gb|GE032749.1|GE032749
EST:     CGCCGGGGTTGATCTCTACAAGTTCGATCCATGGGAGCTACCCG                         CTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACACCGAGGGACA
genomic: CGCCGAGGTTGATCTCTACAAGTTCGATCCATGGGAGCTACCCGgtatgttctt ... tggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACA
EST: gi|208261341|gb|GE058249.1|GE058249
EST:     TTCGATCCATGGGAGCTACCCG                         CTGAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACACCGAGGGACA
genomic: TTCGATCCATGGGAGCTACCCGgtatgttctt ... tggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACA
EST: gi|208201410|gb|GD999651.1|GD999651
EST:     TACAAGTTCGATCCATGGGAGCTACCCG                         CTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACACCGAGGGACA
genomic: TACAAGTTCGATCCATGGGAGCTACCCGgtatgttctt ... tggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACA
EST: gi|193663564|gb|FK604590.1|FK604590
EST:     CATAATCGCCGAGGTTGATCTCTACAAGTTCGATCCATGGGAGCTACCCG                         CTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACACCGAGGGACA
genomic: CATCATCGCCGAGGTTGATCTCTACAAGTTCGATCCATGGGAGCTACCCGgtatgttctt ... tggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatttactttttgtatttattatgatttttctttatttttgtgtggttggcagCTAAGGCCGCGTTTGGGGAGCAGGAGTGGTATTTCTTTACTCCGAGGGACAGGAAGTATCCGAACGGCGCGAGGCCAAACAGGGCGGCGACATCTGGGTA
     ttactttttgtattta  TA-rich tract