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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgtgttccattgcttttataatttatctattgtaacatcatgctagttttaaaatacttagtcattgttcggttcttgcagTCACTCGTTGAATTTTTTGGTACTCTGTCACGAGAATGGGCATTAGAGTGCATGAAAGATCTATTGCTGGTCAATCTTAGAGGCAACCTACAGATTATTG

Basic information

species Glycine max
transcript GLYMA11G35460.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 18
gtttgt-gtgttccattgc-ttttataatttatctattgtaacatcatgctagttttaaaatactta-gtcattgttcggttcttgcagTCACTCGTTGAATTTTTTGGTACTCTGTCACGAGAATGGGCATTAGAGTGCATGAAAGATCTATTGCTGGTCAATCTTAGAGGCAACCTACAGATTATTG
||||||  | ||   ||    ||| |    | |||||| | ||    ||   |   |     | |||   |||| ||         ||| |||| ||||| || ||||| ||||| ||| |||| ||||| || ||||||||||| || ||  ||||||||||||| ||||| || || || ||| |||
gtttgttatcttaagttatgctttgttgcctgtctattattac----tggctggggtggtccatttacaccattattgaa------cagGCACTTGTTGAGTTCTTTGGCACTCTTTCAAGAGAGTGGGCTTTGGAGTGCATGAAGGACCTTCTGCTGGTCAATCTAAGAGGGAATCTTCAAATTGTTG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 18
gtttgt-gtgttccattgc-ttttataatttatctattgtaacatcatgctagttttaaaatactta-gtcattgttcggttcttgcagTCACTCGTTGAATTTTTTGGTACTCTGTCACGAGAATGGGCATTAGAGTGCATGAAAGATCTATTGCTGGTCAATCTTAGAGGCAACCTACAGATTATTG
||||||  | ||   ||    ||| |    | |||||| | ||    ||   |   |    || |||   |||| ||         ||| |||| ||||| || ||||| ||||| ||| |||| ||||| || ||||||||||| || ||  ||||||||||||| ||||| || || || ||| |||
gtttgttatcttaagttatgctttgttgcctgtctattattac----tggctggggtggtctatttacaccattattgaa------cagGCACTTGTTGAGTTCTTTGGCACTCTTTCAAGAGAGTGGGCTTTGGAGTGCATGAAGGACCTTCTGCTGGTCAATCTAAGAGGGAATCTTCAAATTGTTG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 18
gtttgtgtgttccattgcttttataat--ttatctattgtaacatcatgctagttttaaaatacttagtcattgttcggttc----ttgcagTCACTCGTTGAATTTTTTGGTACTCTGTCACGAGAATGGGCATTAGAGTGCATGAAAGATCTATTGCTGGTCAATCTTAGAGGCAACCTACAGATTATTG
             ||| | | |  | |  || |   |||  | |  |  | |  || ||  | || | | ||   ||   ||    |||||| | || || || |||||||||||||| ||  | || |||||| | |||||||||||||||||  || ||||||| || ||||||||||| ||||| || |
-----------gtattacctctgaactaattgttggttgctaaacaactcgatgttcaagttgctgaat-atccctctactcaaatttgcagGCTCTTGTCGAGTTTTTTGGTACTCTTTCTAGCGAGTGGGCAATGGAGTGCATGAAAGATCTCCTGTTGGTCAACCTGAGAGGCAACCTTCAGATAATCG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 18
gtttgtgtgttccattgcttttataatttatct--attgtaacatcatgctagttttaaaatacttagtcattgttcggttct---tgcagTCACTCGTTGAATTTTTTGGTACTCTGTCACGAGAATGGGCATTAGAGTGCATGAAAGATCTATTGCTGGTCAATCTTAGAGGCAACCTACAGATTATTG
             | ||| | |  ||| ||| |   |||| | | |     |||  | || |  ||    |    || | ||    ||||| | || ||||| |||||||| ||||| ||  | || |||||  | ||||||||||| ||||| ||||||||||| || |||||||| || ||||| ||||
-----------gtagtgcctctgaaatatattttggttgttaaacctactaagtggtcaagttgttgcataacactctgctccatatgcagGCTCTTGTTGAGTTTTTTGGCACTCTTTCTAGCGAGTGGGCTATGGAGTGCATGAAGGATCTGTTGCTGGTCAACCTGAGAGGCAATCTGCAGATAATTG

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 18
gtttgtgtgttccattgcttttataatttatctattgtaacatcatgctagttttaaaatacttagtcattgttcggttct-tgcagTCACTCGTTGAATTTTTTGGTACTCTGTCACGAGAATGGGCATTAGAGTGCATGAAAGATCTATTGCTGGTCAATCTTAGAGGCAACCTACAGATTATTG
        |||    | |||  |   | | | | |||   ||  | |   ||| |||| |   || | | |    |||||| | ||| |||| || || || |||||||| || |||||||||||||| || ||||||||||| || ||  | ||||||||||| ||||||||||| ||||| ||||
--------gtttttatacttcaac--tgtgtttcttggttcacta-ggaggttgtaaacttgctattgaatacgtggttctcttcagGCACTTGTAGAGTTCTTTGGTACGCTTTCACGAGAATGGGCTTTGGAGTGCATGAAGGACCTTCTTCTGGTCAATCTAAGAGGCAACCTTCAGATAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattgtaacatcatgctagttttaaaatacttagtcattgttcggttcttgcagTCACTCGTTGAATTTTTTGGTACTCTGTCACGAGAATGGGCATTAGAGTGCATGAAAGATCTATTGCTGGTCAATCTTAGAGGCAACCTACAGATTATTG
   ttgtaac  putative branch site (score: 2)
                                              ttcttgc  putative PPT
                 tagttttaaaatactt  TA-rich tract