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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGAAAGGTGGTAAACTCTCAGGAAGTGTTTTCAATATCCTGTTCAATCTGAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATTCGTCAGgtgcatgaatatttgataaaagtgttattgtgctgttgagtcagtatgattgactattgttggtaagttttgactgccttggtatatgtcttgtgtgaacag

Basic information

species Glycine max
transcript GLYMA03G41180.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G41180.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 5'ss of exon 11
CCTGAAAGGTGGTAAACTCTCAGGAAGTGTTTTCAATATCCTGTTCAATCTGAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATTCGTCAGgtg--catgaatatttg--ataaaagtgttattgtgctgttgagtcagtatgattgactattgttggtaagttttgactgccttggtatatgtcttgtgtgaacag
| | ||| |  ||||||||||||| | | | ||||| ||||| |||||||| || || || ||||| |||||||||||||| |||||  | ||||| ||||||  ||  | |  |||  |||||   || | |   ||||| | ||| | | | | || | | | | | |  |||   |   |  |                    
CTTAAAACGGTGTAAACTCTCAGGGAATATATTCAACATCCTATTCAATCTCAACAAATTTATGGCATTTGAAACTCGTGATCCATTCCTCATTCGCCAGgtgatcacaacttcttgccataaagcagtgaattcactgttaa-tca-tctaaataacaagt-tggatcatcttt--ttatttcag--------------------

upper sequence: GLYMA03G41180.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G148323_T01 (Zea mays), 5'ss of exon 11
CCTGAAAGGTGGTAAACTCTCAGGAAGTGTTTTCAATATCCTGTTCAATCTGAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATTCGTCAGgtgcatg-aatatttgataaaagtgttattgtgctgttgagtcagtatgattgactattgttggtaagttttgactgccttggtatatgtcttgtgtgaacag
| | ||| |  |||||||||||||||   | |||||||| || |||||||| || ||||||||||| |||||||||||||| |||||  | ||||| ||||||  |  |||  || |||||  |   ||| |||||   ||| | || | |  |  ||||  | |||  ||| | ||                          
CTTAAAACGGTGTAAACTCTCAGGAAACATATTCAATATTCTTTTCAATCTCAACAAGTTCATGGCATTTGAAACTCGTGATCCATTCCTCATTCGCCAGgtgattataatccttaataaactttagatt-tgctgccaagt-attaagttaaataattg--gctaatgtttaattgtag-----------------------

upper sequence: GLYMA03G41180.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S34_411V6.1 (Physcomitrella patens), 5'ss of exon 11
CCTGAAAGGTGGTAAACTCTCAGGAAGTGTTTTCAATATCCTGTTCAATCTGAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATTCGTCAGgtgcatgaatatttg-ataaaagtgtt--attgtgctgttgagtcagt-atgat-tgactattgttggtaagttttgactgccttggtatatgtcttgtgtgaacag
||||||  |  ||||| | || || | | |||||||||| || ||||| ||||| |||||| | || ||||| ||||||||||| ||| | |||||||||||     | || |   ||  ||    |  |||    |  | |||  || || |   || | |    | | | | || ||     ||   ||  |||| | |      
CCTGAAGCGGTGTAAATTATCTGGGAATTTTTTCAATATTCTCTTCAACCTGAACAAGTTCGTAGCATTTGAGACTCGTGACCCTTTTCTCATTCGTCAGgtattacattactcatatcgaaaacctggatttcaattcttagttggtcataaagcgagtgtc-cagttcattattcacaattatgaactaaatcttattt------

upper sequence: GLYMA03G41180.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 11
CCTGAAAGGTGGTAAACTCTCAGGAAGTGTTTTCAATATCCTGTTCAATCTGAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATTCGTCAGgtgcatgaatatttgataaaag-tgttattgtgctgttgagtcagtatgattgac--tattgttggtaagttttgactgccttggtatatgtcttgtgtgaacag
  ||||  |  ||||| | || || |   | |||||||| || |||||||| ||||||||| | || ||||| ||||||||||| ||  | || ||||||||   |     | | ||  ||| | | |   |     | |     || | ||||   | | ||  | ||     | |    | |   | | |    ||       
TTTGAAGCGATGTAAATTGTCTGGGAACTTCTTCAATATACTCTTCAATCTCAATAAGTTCGTTGCTTTTGAGACTCGTGACCCCTTCCTCATCCGTCAGgtatttcgtcctcttattcaagatctcagcatatcagtcatcttctaagcttgatattgtagtacgaaaaacaggtccctttcgacgtttataaattgcc-----

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|15000873|gb|BI321687.1|BI321687
EST:     GTGACCCATTTTTGATTCGTCAG                         GAACGTGAGAATCCTACGTTGACAGAGTGGGATCGCTTTGCTCATAGAGAA
genomic: GTGACCCATTTTTGATTCGTCAGgtgcatgaat ... gtgtgaacagGAACGTGAGAATCCTACATTGACAGAGTGGGATCGCTTTGCTCATAGAGAA
EST: gi|17023595|gb|BM094629.1|BM094629
EST:     TGAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATTCGTCAG                         GAACGTGAGAATCCTACATTGACAGAGTGGGATCGCTTTGCTCATAGAGAA
genomic: TGAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATTCGTCAGgtgcatgaat ... gtgtgaacagGAACGTGAGAATCCTACATTGACAGAGTGGGATCGCTTTGCTCATAGAGAA