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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatattttatcttataaatattatttagttccttgcttcaacttgctagatataaataactcaagttttagtaataatacag

Basic information

species Glycine max
transcript GLYMA11G27870.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 21
lower sequence: LOC_Os03g18310.2 (Oryza sativa), 5'ss of exon 19
ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatattttatct---tataaatatt--atttagttccttgcttc--aacttgctagatataaataac-tcaagttttagtaataatacag
||| || |  ||||||||||| ||||||||||||||| | || || || ||| | ||||||||||||||||  |||    ||   |  || |||   ||  ||     |  | |  || |  |    | ||| ||   ||         ||    |||||
ATCACGTAGCAAGGACAAGCTGAGGTATCGTTATCCTAGAGGAGAATCCTACCTCGATGTCATTCAAAGgttaattcaggctatgtgaaattatcacatgcagacatatattacgtaattcacctattgtaactattatcggtgcactttatctttacag

upper sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 21
lower sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 19
ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatattttatct---tataaatatt--atttagttccttgcttc--aacttgctagatataaataactcaagttttagtaataat-acag--------------
||| || |  ||||||||||| ||||||||||||||| | || || || ||| | ||||||||||||||||  |||    ||   |  || |||   ||  ||     |  | |  || |  |    | ||| ||      ||     | ||  | ||||              
ATCACGTAGCAAGGACAAGCTGAGGTATCGTTATCCTAGAGGAGAATCCTACCTCGATGTCATTCAAAGgttaattcaggctatgtgaaattatcacatgcagacatatattacgtaattcacctattgtaactattatcggtgcactttatctttacagtcttctctgttcag

upper sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 21
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 5'ss of exon 20
ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtat---attttatcttataaatattatttagttc---cttgcttcaacttgcta---gatataaataactcaagttttagtaataatacag
 || || |||||||||||||| |||||||| |||||||||||||| || ||| ||||||| || ||||||| |   || |  | ||| ||| | |  || ||     |||   |    || | |   ||| ||    | | || |||  | | |||| |||
GTCACGTAAGAAGGACAAGCTGAGGTATCGGTATCCTCGTGGTGAATCTTACCTGGATGTTATCCAAAGgtttgcaatctgctgttacaaagaatgatttgtcaaaacttaaatattttttccaactgatttattagaataaactttctgcattaatgcag

upper sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 21
lower sequence: PP1S414_24V6.1 (Physcomitrella patens), 5'ss of exon 20
ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatattttatcttataaatattatttagttccttg-cttcaac-------ttgcta-gatataaataactcaagttttagtaataatacag----------------------
| | || |||   || || ||  | ||||| |||||||||||||| || |||||||| ||||| ||||||||||  | |  |    ||    ||||||||| |   | | |||       |  ||  ||  |   | |  |||   || | | |  |  |                       
AGCACGTAAGGCAGATAAACTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctcacatctgcaactgaatttagttcttaaacgttaacgatgatttcactctgagctggttcatgcaaagctttgaagtgtttgatgattattattcgattcttgtag

upper sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 21
lower sequence: PP1S235_92V6.1 (Physcomitrella patens), 5'ss of exon 19
ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatat------------------tttatcttataaatattatttagttccttgcttcaacttgctagatataaataactcaagttttagtaataat-acag-----------
| | ||||||   || || ||  |||| ||||||||||| ||||| || || ||||| ||||||||||||||  |                  ||||  |   ||| |||| | |     |  | | | || | ||  |  |     |  |   | |  | || |  |  |           
AGCACGCAAGGCAGATAAACTCCGGTACCGTTATCCTCGCGGTGAATCTTATTTGGACGTCATTCAAAGgtaagtctatgaactgcaattaaatttagataggaaacattagtgatgctttctcctgagctggttat-tgcacgccccgtagtatctgatgattaccatgggcttcctgcag

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|51336524|gb|CO980390.1|CO980390
EST:     CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG                         ATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT
genomic: CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatatttta ... aataatacagATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT
EST: gi|51336471|gb|CO980337.1|CO980337
EST:     CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG                         ATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT
genomic: CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatatttta ... aataatacagATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT
EST: gi|9564592|gb|BE474101.1|BE474101
EST:     CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG                         ATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT
genomic: CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatatttta ... aataatacagATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT
EST: gi|22930234|gb|BU547373.1|BU547373
EST:     CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG                         ATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT
genomic: CTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatatttta ... aataatacagATTAGAACCTGTAATTATAGAGCTTGAGCGCCAACGAGCACCTGTTGTTGT