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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacctcttccataacttaaatccaatctcttaatcacatacatactttattaacatcaatcatcttatatgtttgcagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG

Basic information

species Arabidopsis thaliana
transcript AT1G15960.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
-------------------------------------------------------------gtataacctcttccataacttaaatccaatctcttaatcacatacatactttattaacatcaatcatcttatatgtttgcagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG
                                                             || ||| ||| |   | |  | |||  |   | |||    | || ||  || | |||   |      ||    |   ||||||||||  | || ||||||||||| ||||||||||| ||||| || |||||||| ||||| ||||| || |||||    ||  | |||||| |  | 
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatg-ttaactaatgcc---ttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA13G44710.1 (Glycine max), 3'ss of exon 10
--------------gtataacctcttccataacttaaatccaatctcttaatcacata---catactttat--taacatcaatcatcttatatgtttgcagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG
              | ||||  | ||    |    | |     |||||   ||   |    ||||| || |  | |   |  || |  | |||   | |||||||||||||| ||||| || || |||||||| || ||||| ||||| || |||||||| ||||||||||||||  |||| | ||| ||     ||
tttgtgtatggtatgcataattttttgttcacaacagagttggtctctggctcctctctgccataccttgtgctgaagcccttctttgtctattcat-cagATGATCTTATCATTTGAGCTTCCTTTTGCTTTGGTTCCACTCCTCAAGTTTACAAGCAGCAAAACCAAAATGGGGACACATGTCAACTCTACAATG

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 11
--------------gtataacctcttccataacttaaatccaatctcttaatcacata---catactttat--taacatcaatcatcttatatgtttgcagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG
              | ||||  | ||   ||    | |     |||||   ||   |    |||||  | |  | |   |  || |  | |||   | |||||||||||||| ||||| || || |||||||| || ||||| ||||| || |||||||| |||||||| |||||  |||| | ||| ||     ||
tttgtgtatggtatgcataattttttgtttacaacagagttggtctctggctcctctctgccataccatgtgctgaagcccttctttgtctattcat-cagATGATCTTATCATTTGAGCTTCCTTTTGCTTTGGTTCCACTCCTCAAGTTTACAAGCAGCAAAACCAAGATGGGGACACATGTCAACTCTACCATG

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA07G02680.1 (Glycine max), 3'ss of exon 10
--------------gtataacctcttccataacttaaatccaatctcttaatca-catacatactttattaacatcaatcatcttatatgt-ttg--cagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG
              |   || | | |  || |   || |    |      || | |||     || |||   |   | || |  | ||| |  ||  |||||||||||||| ||||| || || ||||||||  | ||||| ||||| ||||| ||||| |||| ||| |||||   ||| | ||| ||| |   |
tcagattgtgtattgataaatcccgtgtatgatacaattgaccttgtgagattatcatttgggctatatgtgctgaagtccttctgtatctgctgatcagATGATCTTATCATTTGAGCTTCCTTTTGCTTTGATTCCACTCCTCAAGTTCACTAGCAGCAAAATCAAGATGGGAGAACATGTCAACTCAATCTCG

upper sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 12
---gtataac-ctcttccataact-taaatccaatctcttaatcacatacatactttatt--------aacatcaatcatcttatatgttt-----gcagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG
       ||| |  || |||| |   | |   ||| | ||  |||  |  ||  ||||          || | | | | | | || | ||      ||||||||||||||| ||||||||||| |||||| |  | ||||||||||| ||||| ||| | || || || |||||  || | | ||||||     ||
gtttctcaacacggttacatatccacatagagaattttttgctcatgtctattttttagctcttacggaaaacctaacctttgatgtattgtcttggcagATGATCTTATCATTTGAACTCCCTTTTGCTCTCATTCCACTTCTCAAGTTCACCAGCTGCAAGACTAAGATGGGTGCATATGTCAATTCGACCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctcttaatcacatacatactttattaacatcaatcatcttatatgtttgcagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG
                        tattaac  putative branch site (score: 1)
              atacatactttattaa  TA-rich tract