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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattttttgctaaatattcagaactgagttgattttcttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG

Basic information

species Glycine max
transcript GLYMA08G00560.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G177485_T01 (Zea mays), 3'ss of exon 2
gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattttt----tgctaaatattcagaactgagttgattttcttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG
                                                                      |||||| ||     || ||||||||        |  | || |    ||  || ||  |   |   ||   | |  || | ||  ||||||||||| || |||| ||||||||  || | || ||||| || || |||||||| ||||| ||||||||||| |||||||| ||| |||||||  | |
---------------------------------------------------------------------gtttcttctgcagatttatgatttttattccataagttgttgaattttgtattcatcctagacacaatgtctactattttcatccagGTAATGACTGCACACCCCGATTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

upper sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 7
gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattt----tttgctaaatattcagaactgagttgatttt--cttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG
                                                                      |||||  ||     || ||||||    |     | || || |    ||  || ||  |     |    |   | |  || | ||  ||||||||||| || |||| || |||||  || | || ||||| || || |||||||| ||||| ||||||||||| |||||||| ||| |||||||  | |
---------------------------------------------------------------------gtttctcctgcagatttatgatttgtattccaaaagatgttgaattttgtattcatcctagacacacagtgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

upper sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 5
gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattttt----tgctaaatattcagaactgagttgattttcttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG
                                                                      |||||| ||     || ||||||||        |  | || |    ||  || ||  |   |    |   | |  || | ||  ||||||||||| || |||| || |||||  || | || ||||| || || |||||||| ||||| ||||||||||| |||||||| ||| |||||||  | |
---------------------------------------------------------------------gtttcttctgcagatttatgatttttattccataagttgttgaattttgtattcatcctagacacattgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

upper sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G052277_T01 (Zea mays), 3'ss of exon 7
gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattttttgctaaa--tattcagaactgagttgatttt---cttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG
                                                                      ||||||  | ||  |  |  |||  | | |||  | || |    ||  || |||||   |    ||  | || |  || | ||  ||||||||||| || |||| || |||||  || | || ||||| || || |||||||| ||||| ||||||||||| |||||||| ||| |||||||  | |
---------------------------------------------------------------------gtttcttgagatttatgattctttacttcaaaagttgttgaattttgtatttattttagacacagtgtctgttactgttttgatccagGTAATGACTGCACACCCTGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

upper sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 7
gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattttttgctaaatattcagaactgagttgattttcttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG
                                                  |     | || |        |||  ||| | |  || |     ||  | |  |  |      |  | |   ||| ||| | | |      |  |   |  |||| ||||||   ||||||||||||||  || |||| ||||| || || ||| || | ||||| ||||||||||| |||||||| ||| |||||||  | |
--------------------------------------------------gtattccattatatttacatttttgtttttcttattgtctaagttgcccagttgctt----ttacgctacctttgttcatcacttcattataacattttcagGTGATGACTGTTAACCCAGATTGTGCCACATTAGAAACAACAATTCTTGATACATTACATATAATGCATGATGGCAAATTCTTGCATATTCCTGTTATTG

upper sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
lower sequence: PP1S87_48V6.4 (Physcomitrella patens), 3'ss of exon 7
-----------------------gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcct-ttcttttgtttggttctg------attttttgctaaata------ttcagaactgagttgattttcttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG
                        |  |  ||    ||| | |||||| | ||   | |||  ||| | ||| ||    |    | |    |   |||  || |||  || ||      ||||| || | | |        |    | | || ||   |     ||  |  ||      ||  ||||||||||||| || || ||||| || ||     | ||||| ||  |  |||||||||||||||  ||||| |||||||||||| | |||||||||||   ||
gtgcgatcttttgcataatttccataatagttgagattttaaatttatctattctcaatgatctgaatcgaacgactcactcactcactcactcattcagttatttatttttgtttagtattttatggtgagtgaacttgcttgagatttagatgcgatgtcatttattgttttttgagcttgtgtagGTAATGACACCTAATCCAGAATGCGCGAGTTTGGATACGACTTTGGTGGATGCACTGCATACAATGCACGATGGGAAATTCCTCCATCTTCCTGTTAAAG

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|27427474|gb|CA938994.1|CA938994
EST:     TGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG                         GTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGAT
genomic: TGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAGgttgttattt ... tctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaaatattcagaactgagttgattttcttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG
                                            ttctaat  putative branch site (score: 2)
                   ttgattttcttcttga  CT-rich tract
                   ttgatttt  TA-rich tract