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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgcgtcctgctttgttttgactttattttctgttggtagataaatgaagtgttagtgacttgacacattttaatatgtaatgctattttctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCTTGTGTCTCCTGAGGTGACTCTTCAGTTTTCCTATCTGGCATTGACCTTG

Basic information

species Glycine max
transcript GLYMA11G05340.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G05340.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 7
gatgcgtcctgctttgttttgacttt---attttctgttggtagataaatgaagtgttagtgact-tgacacattttaatatgtaatgctattttctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCTTGTGTCTCCTGAGGTGACTCTTCAGTTTTCCTATCTGGCATTGACCTTG
 |||    ||      |  ||| |||   |       |   || ||   ||          |||  ||||||| ||   |   ||    |   ||||  ||||| |||||| | ||||| ||||||| |||||| ||| |||||||||||||| |  | || || |||                                    
-atgtaagctaagaaatgatgattttggaaagacaaatctctacatttctgttagaaggcagaccatgacacacttacgttctta---tttaattcttctgcagGCACAGTAGGAAACCATGGTCCAGATTTATTAATCCAGATAATCAGCATTTGTTTTCACCAGAG------------------------------------

upper sequence: GLYMA11G05340.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0129g00410.t01 (Vitis vinifera), 3'ss of exon 7
--------------------------------------------------------------------------------------------------gatgcgtcctgctttgttttgactttattt-tctgttggtagataaatgaagtgttagtgac-ttgacacattttaatatgtaatgctattttctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCTTGTGTCTCCTGAGGTGACTCTTCAGTTTTCCTATCTGGCATTGACCTTG
                                                                                                  |    ||   | |||  ||   ||  ||   |  | |   ||  | |  |      |||||  |  ||| |  ||||| ||| |    ||||     ||||| |||||  |||| || ||||||||||||||| ||||||| ||||||||||| || ||||| |||                                    
gtatgttcaacgtgaatttctccagcatgtggttaatccactatcactcaatgaaagctaggattacattaaaatattaccttccgtgggaacataaaggaatgtgaaggtttcattcttctccataagtaagatttaagtcacaccacaaacaagtgatatcaacagaaattaatgtgtcagttcatttgtc--tgcagGCACAGCAGAAAGCCGTGGTCCAAATTTATCCATGCAGACAATCAGCATCTAGTTTCTCCAGAG------------------------------------

upper sequence: GLYMA11G05340.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 3'ss of exon 8
------------------------------------------------------------------------gatgc-gtcctg-ctttgt--tttgactttattttctgttggta----gataaatgaagtgttagtgacttgacacattttaatatgtaatgctattttctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCTTGTGTCTCCTGAGGTGACTCTTCAGTTTTCCTATCTGGCATTGACCTTG
                                                                        ||||  ||| |  | |||    |  |||  ||     ||||       | |||  || ||   | || |   | || |||      |  |   | ||        |||| | |   | ||||| ||||| |||||||||||||| |||||||||||  | ||    || |||                                    
gtttgtgttcaggcctatgggcaaaccagaaggtttttattttagtgcatgtaaagtcaaagttgcagtatagatgttgtcataaccttgcagctgtactgaatgactcgttgactcaatggtaagagatgttcaattgcccgtagacttttctcaccggtacattgttggtcccatcagAAATAACAGGAAACCTTGGTCGAAATTTATCAATGCTGATAATCAGCACTTGGTTGTACCAGAG------------------------------------

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|9204068|gb|BE330292.1|BE330292
EST:     AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
genomic: AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
EST: gi|208215776|gb|GE008544.1|GE008544
EST:     AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCAT
genomic: AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaagtgttagtgacttgacacattttaatatgtaatgctattttctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCTTGTGTCTCCTGAGGTGACTCTTCAGTTTTCCTATCTGGCATTGACCTTG
                        ttttaat  putative branch site (score: 3)
                                       ctattttct  putative PPT
                       attttaatatgtaatg  TA-rich tract