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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttcctcttacaaatgcattgatactctctgtcttcaatggttgagttagctaatcataatagataacatgatcggattgtgtagataactgtccatatcttgttgcagTCCAGGTCTTATTTCATGTTTCATCGGTTGGATATTAACGAACCGCAATCAATATTCAGATATTTACCTGTGCTTTCATTCACAGAGAGTTACATATATC

Basic information

species Arabidopsis thaliana
transcript AT5G10320.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G10320.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G024119_T04 (Zea mays), 3'ss of exon 4
gtaagtttttcctcttacaaatgcattgatactctctgtcttcaatggttgagttagctaatcataatagataac--atgatcggattgtgtagataactgtccatatcttgttg------cagTCCAGGTCTTATTTCATGTTTCATCGGTTGGATATTAACGAACCGCAATCAATATTCAGATATTTACCTGTGCTTTCATTCACAGAGAGTTACATATATC
                     ||     | | | ||| | ||    ||||  |  ||   ||| | |    |  |  || ||    ||      |   |  |   |  ||| |||      ||||  ||||| || || ||||||||| | |||||| ||||| | || ||| | || ||||  ||| ||||||| ||||| ||||||||||||||||||||||
---------------------tgttcaaaca-tgtcttttttggggggttatg--agtctatcttgagcacttcctgataattatgtttccctaaagtcccttttttccttcttgagaaaacagTGTAGGTCGTACTTTATGTTTCATGGTTTGGATGTTAACAAGCCACAAGCCATTTTCAAGTATCTACCTGTTCTTTCTTTCACAGAGAGTTACATATATC

upper sequence: AT5G10320.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G01920.2 (Glycine max), 3'ss of exon 3
gtaagtttttcctcttacaaatgcattgatactctctgtcttcaatggttgagttagctaatcataatagataacatgatcggattgtgtagataactgtccatatcttgttgcagTCCAGGTCTTATTTCATGTTTCATCGGTTGGATATTAACGAACCGCAATCAATATTCAGATATTTACCTGTGCTTTCATTCACAGAGAGTTACATATATC--
           ||||     |  | | |  |  ||   | || ||||  |  |    ||    || | |  |  | |  |  |||| ||  | ||| |     | || | || |||| ||| |||||||| ||||||||  | |||||| | | | | || |||||||| |||| ||| |||||| | |||||||||||||||||||| || ||||  
-----------ctct-----acccttagcaagcctaactatttaatgaatatgc---cttgctatcaaaacttgctttgt--gattctgatgttaatttgaactttcctttttcagtgcagATCTTATTTTATGTTTCACGGATTGGATGTAAGCAAGCCACAATCAATCTTCAAATACTTACCTATTCTTTCATTCACAGAGAGTTATATTTATCAG

upper sequence: AT5G10320.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G01920.1 (Glycine max), 3'ss of exon 3
gtaagtttttcctcttacaaatgcattgatactctctgtcttcaatggttgagttagctaatcataatagataacatgatcggattgtgtagataactgtccatatcttgttgcagTCCAGGTCTTATTTCATGTTTCATCGGTTGGATATTAACGAACCGCAATCAATATTCAGATATTTACCTGTGCTTTCATTCACAGAGAGTTACATATATC
          |||||  | |   | | |  |  ||   | || ||||  |  |    ||    || | |  |  | |  |  |||| ||  | ||| |     | || | || |||| ||| |||||||| ||||||||  | |||||| | | | | || |||||||| |||| ||| |||||| | |||||||||||||||||||| || ||||
----------cctctctctacc-cttagcaagcctaactatttaatgaatatgc---cttgctatcaaaacttgctttgt--gattctgatgttaatttgaactttcctttttcagTGCAGATCTTATTTTATGTTTCACGGATTGGATGTAAGCAAGCCACAATCAATCTTCAAATACTTACCTATTCTTTCATTCACAGAGAGTTATATTTATC

upper sequence: AT5G10320.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G38020.1 (Glycine max), 3'ss of exon 3
gtaagtttttcctcttacaaatgcattgatactctctgtcttcaatggttgagttagctaatcataatagataacatgatcggattgtgtagataact--gtccatatcttgttgcagTCCAGGTCTTATTTCATGTTTCATCGGTTGGATATTAACGAACCGCAATCAATATTCAGATATTTACCTGTGCTTTCATTCACAGAGAGTTACATATATC
                || |||  | ||  |  ||   |  |   |  |  |  || ||    || | |  |  | |     |||| ||  | ||| |    || | | || || |||| ||| ||||| || ||||||||  | |||||| | | | | || |||||||| |||| ||| |||||| | |||||||||||||||||||| || ||||
----------------actaatttagtggaaggcttgatactatttaatgaatataccttgctatcaaaacttgctttgc--gattctgatgttaatttgaacccttttttttttcagTGCAGATCTTACTTTATGTTTCACGGATTGGATGTAAGCAAGCCACAATCAATCTTCAAATACTTACCTATTCTTTCATTCACAGAGAGTTATATTTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcataatagataacatgatcggattgtgtagataactgtccatatcttgttgcagTCCAGGTCTTATTTCATGTTTCATCGGTTGGATATTAACGAACCGCAATCAATATTCAGATATTTACCTGTGCTTTCATTCACAGAGAGTTACATATATC
                             agataac  putative branch site (score: 3)
                                            tcttgtt  putative PPT
     atagataa  TA-rich tract