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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcgagaacctgctagcatttaatttttatatctacatttgctttcatatttcctttgaattcatatgcatgctatcatgtattacaaggaagg...

Basic information

species Glycine max
transcript GLYMA20G38980.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g67340.3 (Oryza sativa), 5'ss of exon 5
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcgagaacctgctagcatttaatttttatatctacatttgctttcatatttcctttgaattcatatgcatgctatcatgtattacaaggaagg--
| ||  | || ||||| || || || |||||||| || || |||||||| ||||| ||||| ||||||||| ||||||| ||||||||||||||||||||||||   |    | | |  |      | |  ||||| |     ||   ||   || || ||||  |    ||    | | || |  | |   |||||     
CAAAAGTTGCAGACTTCAATCTCTCAAATCAGGCTCCAGATATGGCTGCTCGTCTGCATTCTACTCGTGTACTGGGAACCTTTGGTTATCATGCTCCAGAgtaaaaattcttaccatattctgtgatgaactttattttactgttcaatt--gtagtttctttatagcattacttcttcaattaactttggaaaggaccagt

upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os03g62700.1 (Oryza sativa), 5'ss of exon 5
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcgagaacctgctagcatttaatttttatatctacatttgcttt--catatttcctttgaattcata-tgcatgctatcatgtattacaaggaagg--
| || || || || || || || |  ||||| || || || ||||| ||||| |||||||||||||||||||| ||||| ||||| |||||||| |||||||||  |   |     |  || || |  |||| |  ||  | | |  || |  |   | |   || ||||  || | ||  | | ||    ||| ||   | |  
CAAAAATTGCAGATTTCAATCTCTTAAATCAAGCTCCAGATATGGCAGCACGCCTTCATTCAACTCGTGTATTAGGAACCTTTGGATATCATGCACCAGAgtaatgtctaa----tttataccaatgcatttcttcataga-actcactatatcgcgtcttacttcaatttttaatccagcccaacagtagttaaaatatatgtt

upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G346132_T01 (Zea mays), 5'ss of exon 5
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcgagaacctgctagcatttaatttttatatctacatttgctttcatatttcctt--tgaattcatatgcatgctatcatgtattacaaggaagg------
| |||||||| |||||||| || || |||||||| || || |||||||| ||  | |||||||||||||| |||||||| ||||| ||||||||||||||||||      | | |||  |  | |  | |   ||||| |   ||  ||||  |  | | ||  ||  ||   |||  |  | ||||  |||     |  ||      
CAAAGATAGCAGACTTTAATCTCTCAAATCAGGCTCCAGATATGGCTGCCCGGTTGCATTCAACTCGTGTCTTGGGAACCTTTGGATATCATGCTCCAGAgtaa------aaaccctttt--cttaaagtaactatatgttacttaactttagttgtgctttcctgcttttgcatgggttgtctcattaattttcgagttggtcagca

upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G001668_T01 (Zea mays), 5'ss of exon 5
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcgagaacctgctagcatttaatttttatatctacatttgctttcatatttcctttgaattcatatgcatgctatcatgtattacaaggaagg-
| || || || |||||||| ||||  || || || || || ||||| || ||||| |||||||||||||||||||| |||||||| ||||||||||| ||||||   |  |  |||      |||   | || | |   | ||||| | | |||  ||  | ||| | ||  |   |    |||  | |  |         
CAAAAATTGCAGACTTTAATCTTTTGAACCAAGCACCAGATATGGCAGCTCGTCTCCATTCAACTCGTGTATTGGGGACTTTTGGATATCATGCTCCTGAgtaattgtttaatacccttattcataataattatcttctttcattttcat-cattgttagtctgactgcacctttctcagctcaactgtagctttctcttt

upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G071877_T01 (Zea mays), 5'ss of exon 5
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcgagaacctgctagcatt-taatttttatat-ctacatttgctttcatatttcctttgaattcatatgcatgctatcatgtattacaaggaagg--
| || || || ||||| || ||||  || || || || || ||||| || ||||| ||||||||||||||||||||||||||||| |||||||| || ||||||   |  |  ||       |||  ||||| |  | | | |||||   |||||| |||   ||  | |    ||||  || ||     | |   | |     
CAAAAATTGCAGACTTCAATCTTTTGAACCAAGCACCAGATATGGCAGCTCGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgtttaatactcttattcatgataattatcttctgccacattcattttcattttt---ttacacttgactgca-actttctcaggtcaactgtagcttt

upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G153945_T03 (Zea mays), 5'ss of exon 5
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagc-ttcgaga---acctgctag-catttaatttttatatc-tacatttgctttcatatttcctttgaattcatatgcatgctatcatgtattacaaggaagg
|||| || || ||||| || ||||| |  ||  | || || |||||||| ||||| ||||| ||||||||  | ||||| || || ||||||||||||||||||   || || |   |  ||| |  |  | |   |||  ||  |  || |    | ||    ||    ||||   ||  ||   |   | |  | ||       
CCAAAATTGCAGACTTCAATCTTTCAAGCCAATCTCCAGATATGGCTGCTCGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattatttgacatacatatgcaattcgctcatactttgcataatgtatctaggattatgcccccacataattatcatttatttaactttatcct-catt-----

upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G43230.1 (Arabidopsis thaliana), 5'ss of exon 4
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaa----gcttcgagaacctgctagcatttaatttttat-atctacatttgctttcatatttc--ctttgaattcatatgcatgctatcatgtattacaaggaagg
||||||| ||||||||||| ||||| ||||| || ||||| |||||||| ||||||||||| ||| | || ||||| || || ||||||||||| |||||||||    ||||| | |   || ||||    ||||||  | ||    | |  ||   | | |    |||||  ||   |                            
CCAAGATTGCTGACTTTAATCTTTCCAATCAAGCTCCTGATATGGCTGCTCGTCTTCATTCCACTAGAGTTTTGGGGACCTTCGGTTATCATGCACCAGAgtaaatatgcttcaaca--ttgatagctcggaattttcttgattcttagtaactgaaagaatgtaactttgggtttgcag---------------------------

upper sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv05s0124g00360.t01 (Vitis vinifera), 5'ss of exon 5
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaa-gcttcgagaacctgctagcatttaatttttatatctacatttgctttcatatt--tcctttg---aattcatatgcatgctatcatgtattacaaggaagg
||||||| || || ||||| ||||| |||||||| |||||||||||||| || |||||||| ||||| ||  |||| || ||||| |||||||| ||||||||| | |||   ||| |  |  | |||  || ||  |     |||  |||     ||  |  ||||   || | || |  ||   ||    |  |   |      
CCAAGATTGCAGATTTTAATCTTTCAAATCAGGCTCCTGACATGGCTGCTCGCCTTCATTCTACTCGAGTCCTGGGGACCTTTGGCTATCATGCACCAGAgtaatgattctgtaacttattttcctttgtttctttgactattattatcttatgagttaattgtttggtaaaattatttttataagattgccttcttgta------

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|9820246|gb|BE555756.1|BE555756
EST:     CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGA                         ATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTCGG
genomic: CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcg ... aactttacagATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG
EST: gi|19053775|gb|BM732442.1|BM732442
EST:     CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGA                         ATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG
genomic: CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcg ... aactttacagATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG
EST: gi|15663739|gb|BI701110.1|BI701110
EST:     CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGA                         ATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATACTTTTGG
genomic: CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcg ... aactttacagATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG
EST: gi|15663685|gb|BI701056.1|BI701056
EST:     CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGA                         ATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG
genomic: CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcg ... aactttacagATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG
EST: gi|21888801|gb|BQ742014.1|BQ742014
EST:     CGTCTTCATTCAACTCGTGTATTGNGAACTTTTGGTTATCATGCTCCAGA                         ATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTT
genomic: CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcg ... aactttacagATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTT
EST: gi|8669663|gb|BE190770.1|BE190770
EST:     CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGA                         ATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG
genomic: CGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcg ... aactttacagATATGCAATGACTGGGCAGTTGACTCAAAAAAGTGATGTCTATAGTTTTGG