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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agataatttttctatttaatatctgacacctgattgttttgtttgattgctgatattaataatctaattcaatatttttttctgtttctttttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCA

Basic information

species Glycine max
transcript GLYMA09G38650.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G38650.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
-------agataatttttctatttaatatctgacacctgattgtttt--gtttgattgctgatattaataatctaattcaatatttttttctgtt-------tctttttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCA
         | | ||    ||| |  || ||   || || | |  ||  |  |  ||  | ||  |   | |    | |||||||| |||  |||       | || ||   ||||||||||   ||||| ||||||||||||||||| ||||| || |||||||||| ||| || || ||||| ||||| || |||   |||| | || || |  
gtttgttctaaatttccattatctttta-ctattacttgttggacttaaggatagttcattattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG

upper sequence: GLYMA09G38650.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g68860.1 (Oryza sativa), 3'ss of exon 4
--agataatttttctatttaatatctgacacctgattgttttgtttgattgctgatattaataatctaattcaatatttttttctgtttctttttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCA
     || ||| |   |  |  |  | |       ||  ||| | |  || ||  | ||  | || || |  | |    |   ||||||  || ||    ||| |||    || ||||| ||||| |||| ||| ||||| ||||||| |||||| || || ||||||||||||||  |||    ||||    ||  |||  
gtttgtagtttattgctgcagcacatcatctgcccttcctttttatagtttcttctctt--tgatgtactgaagtgaagt---ctgtttgcttctg---tagAGTGAAAAGGAGTGTGCATATTACTTAAAAACAGGACAGTGTAAATATGGGAATACATGTAAATTTCACCATCCAGAACTTTTCAATGCTATGGCTTCTT

upper sequence: GLYMA09G38650.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G100794_T01 (Zea mays), 3'ss of exon 4
----------agataatttttctatt--taatatctgac-acctgattgttttgtttgattgctgatattaat---aatctaattcaatattt-------ttttctgtttctttttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCA
          |  |  | || | |||  |||| | | || |  ||| ||  | |  || |  |  || ||  |   | | |  | ||| ||||       ||   ||  | || ||  | ||||||||    ||||||||||||||||||||||| || || || || ||||| | ||| || || ||||||||||| ||||||  || |||| || || || 
gtttgttctgaatttctattacaattcataatgtttcacgatatgaatgcatagcatggtgccacatttttgtgcaacttttttgcaagatttgcgccgtttacttgaattttattactgcagAATGAAAAGGAATGTGCTTATTATTTAAGAACAGGGCAGTGCAAGTTTGGAAGCACATGTAAGTTTCACCATCCACAACCATCCACTATGATGGTTGCCG

upper sequence: GLYMA09G38650.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 4
---agataatttttctatttaatatctgacacctgattgttt-tgtttgattgctgatattaataatctaattcaatatttttttctgtttctt-tttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCA
   |  | |  || | |   ||  ||   ||  | | ||||| || ||  ||| ||  || ||  || | ||    |  ||||  |||||  || |||  |  || |||||  ||| |||||||||||||||||||||||||| || || ||||| |  || || |||||||||||||||||||||   | |||| || ||||  
tgcacctgacattgcca---aagctcctgcattttagtgtttgtgcttctttggtgggatgaa--attttatatcctgattttccctgttctttctttcgtgtagGATGAGATTGACTGTGCTTATTATTTAAGAACTGGACAGTGCAAGTTTGGAAGTACATGTAAATTTCACCATCCTCAACCATCTAGTATGATGGTTTCAT

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|20813953|gb|BQ298431.1|BQ298431
EST:     CCATGAATATTTTAGGCTATCCTCTCCGCCCA                         AATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGG
genomic: CCATGAATATTTTAGGCTATCCTCTCCGCCCAgttagtattg ... tttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGG
EST: gi|15814048|gb|BI786323.1|BI786323
EST:     GGATTGCTGGAAGAGTTGCCATGAATATTTTAGGCTATCCTCTCCGCCCA                         AATGAGCCTGAATGTGCTTATTATTTAAGA
genomic: GGATTGCTGGAAGAGTTGCCATGAATATTTTAGGCTATCCTCTCCGCCCAgttagtattg ... tttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGA
EST: gi|26057548|gb|CA800462.1|CA800462
EST:     GGATTGCTGGAAGAGTTGCCATGAATATTTTAGGCTATCCTCTCCGCCCA                         AATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGG
genomic: GGATTGCTGGAAGAGTTGCCATGAATATTTTAGGCTATCCTCTCCGCCCAgttagtattg ... tttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGG
EST: gi|207770523|gb|GD742879.1|GD742879
EST:     GGATTGCTGGAAGAGTTGCCATGAATATTTTAGGCTATCCTCTCCGCCCA                         AATGAGCCTGAATGTGCTTATTATTTAAGAACTGGAACAATGTAAATTTGG
genomic: GGATTGCTGGAAGAGTTGCCATGAATATTTTAGGCTATCCTCTCCGCCCAgttagtattg ... tttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGA-CAATGTAAATTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgctgatattaataatctaattcaatatttttttctgtttctttttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCA
                           tatttttttctgtttc  CT-rich tract
       atattaataatctaat  TA-rich tract