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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcatttcaattatatgttttgtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag

Basic information

species Glycine max
transcript GLYMA20G36740.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 5'ss of exon 2
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcatttcaattatatgttttgtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag
| ||||| || |||||||| ||||||||||| || |||||||||||||| ||||| || ||||||||| | ||||||||  | || || ||  | |||||||  | | |    | | |  ||| |  ||| | |  ||| |     ||  |||   || | |   ||||||    |||| |        || ||   || |||  |||| |  | |||
GTATGGGGTTCATTCAGTCCAACCACTCTGTGATCATGTACAACAACACCATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccg-gctctctcttttttttttacatatttttactgttatatctcagcttagcctgagct---tgttttatccatatcaa-------ttcatttgttacaactaatggtcctacag

upper sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 2
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcat--ttcaattatatgttttgtgactaaacattttatgatgtggtgt--------ctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag--------
| ||||| || || ||||| || |||||||| || |||||||||||||| ||||| || || |||||| | ||||||||  | || || ||  | |||||||   |        ||||      |  ||| | | | | |    | || |  ||   | ||  | |        || |||   | |  |  | |       ||| ||| |  || | | |  ||   |        
GCATGGGGTTCATCCAGTCAAATCACTCTGTGATCATGTACAACAACACCATGATCAGTTTTAACATGCTGGAGGCTGCACGTATCAATGGTGTGAAGAGgtatatatacaaatatattgccacttcattttctttctggctggtgaataacttcccaagtaatctagctgatgctatttgactgaagttttcaaagaacctattcatgcataatagtatcattttggtctggcag

upper sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 2
lower sequence: AT5G28840.1 (Arabidopsis thaliana), 5'ss of exon 2
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcatttcaattatatgttttgtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag
| ||||||||||| |||  ||| |||||||| |||||||| || || || |||||||| ||||| |||||||||||||| ||||| || || |||||||||||||| |   |   | |  ||    ||      |||  |  |    |    | | |     |  ||  ||  || | || |   |                                
GTATGGGTTTTATCCAGAGTAATCACTCTGTGATTATGTATAATAATACTATGATTAGTTTCAATATGATTGAGGCTGCTAGGATCAATGGGATTAAGAGgttagttagattttgttttcttcggttttcgcagtttacggtttcttaaaacaagttaaaaagattggattttttgtttgctttag--------------------------------

upper sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 2
lower sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcatttcaattatatgttttgtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag
| ||||| || || ||||| || ||| ||||||||||||||||||| || ||||| |||||||||||| |||| ||  |  | || || ||  |    ||||   || |  ||  |  | || ||||| ||   || |  | |      | | |  | | |  |  |       | | || | |||||   | |   || |                 
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttac-cttagccatttccagctctttattcttgctttcga---aggtctctgcttatgtgcaatctctgtttctct--------------

upper sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 2
lower sequence: PP1S98_250V6.1 (Physcomitrella patens), 5'ss of exon 1
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcatttcaattatatgttttgtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag
| |||||||| |||||||| |||||| | || || |||||||||||||| ||||| ||||| |||||| | ||||| ||  | || || ||| |     |||| |  |    || |  |  |||         |||||   ||   | | |         |  |||  ||      |  ||  |        |    |  |||  ||||||| |    
GCATGGGTTTCATTCAGTCCAACCACGCCGTGATCATGTACAACAACACCATGATCAGCTTTAACATGCTCGAGGCCGCGCGCATCAATGGCGTCTCTCGgttggcaac---ccttgccccttct--------ttttgcctctctccctctcgcagctctggatcttctt------ttcgaaaaaaaaacacacagttaacaatgaatgtttctttg-

upper sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 2
lower sequence: PP1S237_14V6.1 (Physcomitrella patens), 5'ss of exon 1
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcatttcaattatatgttttgtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag
| ||||| || || |||||||||||| | |||||||||||||||||||| ||||| || ||||||||| | || || ||  | || |||||  |||   |||  | | |    |  |    ||   ||          | || |      || | |  | || ||||     ||||   |    | |||||  |  ||||| ||    |||       
GTATGGGCTTCATCCAGTCTAACCACGCCGTCATTATGTACAACAACACCATGATCAGTTTCAACATGCTCGAAGCCGCTCGCATCAACGGTGTTACCCGgtgcgcgct--ctcgcagtgctttctttgc------cattaccagttcgattttcacttcgtctctgcc---attagtgggaattttgtttcttttattcctaattgcgtt-------

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|298193694|gb|HO040342.1|HO040342
EST:     ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAG                         GNNNNNNNATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
genomic: ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatg ... gtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
EST: gi|19270441|gb|BM886697.1|BM886697
EST:     ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAG                         GNNNNNNNATGCCTCTAGTGCTTGTATCTACCCTGAATTCAA-CAGTTGGA
genomic: ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatg ... gtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
EST: gi|19347576|gb|BM892456.1|BM892456
EST:     ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAG                         GNNNNNNNATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
genomic: ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatg ... gtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
EST: gi|209703622|gb|BW656578.1|BW656578
EST:     ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAG                         GNNNNNNNATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
genomic: ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatg ... gtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
EST: gi|15287908|gb|BI471799.1|BI471799
EST:     ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAG                         GNNNNNNNATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
genomic: ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatg ... gtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
EST: gi|192302093|gb|FG995227.1|FG995227
EST:     ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAGCGGCATTAAGAG                         GNNNNNNNATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
genomic: ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatg ... gtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
EST: gi|254317427|gb|GR826372.1|GR826372
EST:     ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAG                         GNNNNNNNATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA
genomic: ATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatg ... gtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGA