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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