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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaattaatatttaactttatttttcactttctaatttaaaccatgttttttcatatattaattctttttttcttgcag

Basic information

species Glycine max
transcript GLYMA20G28740.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g41230.2 (Oryza sativa), 5'ss of exon 6
---TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaattaatatttaactttatttttcactttctaatttaaaccatgttttttcatatattaattctttttttcttgcag
    || || |||||    |||||  ||||||||||||||||||||||||||||||||||||||||||| || || |   ||||  |||  || | |||| |    |  |         ||   |||| ||    ||||||  |||    | || |  | |  |||| ||| |||  | | ||  ||
CATGGAAACAGTTCTATCGACTCGAGAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTAATTCGCA---CTGAGCCTG-GTCAGGAATTAGCTgtaagagccactctctttgttttacttc---ctttctcctttgttacgtgctactgctcatat-aatccttgctatattatag

upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G322090_T01 (Zea mays), 5'ss of exon 7
TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaattaatatttaactttatttttcactttctaatttaaaccatgttttttcatatattaattctttttttcttgcag
 || || |||||    || || || |||||||| ||||| |||||| | |||||||||||||||||||| |  |  |||||  |||  | || | || |||  |  | |     | |||   || |  || | | | |  ||||| |     | || |  |||| | |   ||   |  || ||
GGAAACAGTTCTGTCTACACGGCAACAGATTGAATCTCGCAATCCATTAGCATTTGCTCCTAAAGTCATTCATACATCTGAGCCTG-GTATGGACTTAGGGgtaagagacactaactta---ttgtacttgagtatttcctttaatcttgtctgttgctaatatcattgtcttcaatactgtag

upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G701689_T01 (Zea mays), 5'ss of exon 6
TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaattaatatttaactttatttttcactttctaatttaaaccatgttttttcatatattaattctttttttcttgcag
 || ||||||||    || || || |||||||| ||||| |||||| | ||||||||||||||||| || |  |  |||||  |||  |||| || |  ||  |  | |     | |||   || | | | | |   |   |||| |     | || |  |||| |     ||   | ||| ||
GGAAACTGTTCTATCTACGCGGCAACAGATTGAATCTCGCAATCCATTAGCATTTGCTCCTAAAGTAATTCATACATCTGAGCCTG-GTCTGGAACTAAGGgtaagagacactaactta---ttgtatctgagtacttcccttaatcttgtctgttgctaatatcatcatcttcaatattgtag

upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 4
lower sequence: AT3G22760.1 (Arabidopsis thaliana), 5'ss of exon 6
TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaatt-aatatttaactttatttttcactttcta---atttaaaccatgttttttcatatattaattctttttttcttgcag
 ||   ||| ||    |||||| | |||||||| || || |||||||||||||||||||||||||||||  |||  || |||||  |   |||| |||| || ||     | |||||||   |||| || |||   || |   |||||   |||         ||||  | |     ||   |  |||
AGATGTTGTCCTGGCTACTCGCAAACAGATTGAATCCCGCAATCCACTTGCATTTGCTCCTAAAGTCATCAGAAACTCAGATTCCATCATTGAAGTTGGTgtaagtgttctcaatatttccttttacttatcatcctcaatacatttatctcattgaaaaggctataaaattctgcattggttcacag

upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 4
lower sequence: AT3G22780.1 (Arabidopsis thaliana), 5'ss of exon 6
TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaattaatatttaactttatttttcactttctaatttaaaccatgttttttcatatattaattctttttttcttgcag----------------------
 || |||||| |    || ||| | |||||||| || || |||||||||||||||||||||||||||||  ||| | | |||||  |    |||  | | || || |  |   ||||  |  || || ||| |   |         |  | |   |   | | |    ||  ||  |||    |                      
AGAAACTGTTTTGGCTACCCGCAAACAGATTGAATCCCGAAATCCACTTGCATTTGCTCCTAAAGTCATCAGAAATGCAGATTCCATCATGGAAGCTAGTgtaag-agctctctattccatctttttattccccccccccccccccctctctcactctctctgtc--ctccattaatctaagggatgacatcgttatcttgcacag

upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 4
lower sequence: AT4G14770.1 (Arabidopsis thaliana), 5'ss of exon 5
TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaattaatatttaactttatttttcactttctaatttaaaccatgttttttcatatattaattctttttttcttgcag----
 ||   ||| ||    |||||| | |||||||| ||||| |||||||||||||||||||||||||||||  | |  ||||| || ||    ||||  ||||| || |   |  |      | ||   || | ||   | ||  |  | || ||  || |  |  ||||  | || |  |  ||     
AGACGTTGTCCTGGCGACTCGCAAACAGATTGAATCTCGGAATCCACTTGCATTTGCTCCTAAAGTCATTAGGAACTCTGACTCAGTTCAAGAAACCGGGgt-aggattcttttccccgtcctttgattcctctgcatcatccat-ctatcttgcttgaagttataataatattgtaatgacacacag

upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv05s0020g03880.t01 (Vitis vinifera), 5'ss of exon 7
TGAGACTGTTCTTCAAACTCGCCAGCAGATTGAGTCTCGTAATCCACTTGCATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaattaatatttaactttatttttcactttctaatttaaaccatgttttttcatatattaattctttttttcttgcag
 || |||||||||  ||||||| ||||||| || ||||| |||||||| ||||||||||| ||||| ||  | || ||||||||| |  | ||| ||||||| || | || | | ||   | || | |||        ||| | |||      ||  | | |         |||| ||||||||
AGATACTGTTCTTGCAACTCGCAAGCAGATCGAATCTCGGAATCCACTAGCATTTGCTCCCAAAGTGATTAGGAGCTCTGATTCTTTGCCGGAAGTTGGGgttaggacataattctt--gccttgtgtttatacagaaaatctgaactgctagttaccctgttaagtgaggttttctcttgcag

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|192297452|gb|FG989861.1|FG989861
EST:     CATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGG                         GATGACCTTAGCAAAACTCCAGCCTCAGCACGACA
genomic: CATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaat ... tttcttgcagGATGACCTTAACAAAACTCCAGCCTCAGCACGACA
EST: gi|18040703|gb|BM308997.1|BM308997
EST:     CATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGG                         GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAAT
genomic: CATTTGCTCCTAAAGTCATACGAAGTTCTGATTCTGTATCTGAAATTGGGgtcagcaaat ... tttcttgcagGATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAAT