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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcggcagctcatttttgcatctattaccatgtcctttcttatagggtttcaattcatgtataatctgctaaatctgaaaaccttgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT

Basic information

species Arabidopsis thaliana
transcript AT1G75850.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 7
gttcggcagctcatttttgcatctattaccatgtcctttcttatagggtt-tcaattcatgtataatctgctaaatctgaaaaccttgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT
        |       ||  || | ||  ||  |       ||||   |  || ||   | ||      ||| ||   ||||    |   ||||| || || ||||| ||| |  | || || |  || |||||||| |||||||| ||||||||||| || || |||||||| |||||  | || || || |
--------gtctgcaattagatttgttgacaaat-------tataaaatgatccatgattctactggaagctgaagaagaaatatattggcagGTGGTTAATTGTAAGGATGAACTTGCACAATTCTACCTGATGGACTGCATAATACAAGTCTTTCCAGACGAATACCATTTACAGACATTGGAAACATTGT

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 7
gttcggcagctcatttttgcatctattaccatgtcctttcttatagggtttcaattcatgtataatctgctaaatctgaaaaccttgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT
||| |    || |     | ||  || |  |||   | |    ||   | |  |||   ||||       ||| | | ||    |||  ||||| || || ||||| ||| |  | || ||||  || |||||||| |||||||| ||||||||||| ||||| |||||||| || ||  | || || ||||
gtttgcagtctgaa----gtattgatgattatgatatat----taaattattgatt---gtattggaacttaagtattaatgtattgg-cagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 8
gttcggcagctcatttttgcatctattaccatgtcctttcttatagggtttcaattcatgt---ataatctgctaaatctgaaaac---cttgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT
||     |    |  ||| |  |    |  ||    |||||  ||  ||  |  || ||||   |   |||   |  | |  |||    ||||||||||| ||||| ||||||||| || | || || | |||||| |||||||||||||| || || ||||| |||||||||||||||||||| |||||||| || |
gtctaataaagtacattttctccccaaaatatagtttttctcttattgtaacccttgatgttatactgtctctcagctgtttaaattggcttgaacagGTTGTCAATTGTAAAGATGAGCTTGCCCAATTTTATCTTATGGAGTGCATAATCCAGGTTTTTCCCGATGAGTACCATTTGCAGACACTTGAGACTTTGT

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 7
gttcggcagctcatttttgcatctattaccatgtcctttcttatagggtttcaattcatgt---ataatctgctaaatctgaaaac---cttgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT
||     |    |  ||| |  |    |  ||    |||||  ||  ||  |  || ||||   ||  |||   |  | |  |||    ||||| ||||| ||||| ||||||||| || | || || | |||||| |||||||||||||| || || ||||| |||||||||||||||||||| |||||||| || |
gtctaataaagtacattttctccccaaaatataatttttctcttattgtaacccttgatgttatattgtctctcagctgtttaaattggcttgagcagGTTGTCAATTGTAAAGATGAGCTTGCCCAATTTTATCTTATGGAGTGCATAATCCAGGTTTTTCCAGATGAGTACCATTTGCAGACACTTGAGACTTTGT

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 7
gttcggcagctcatttttgcatctattaccatgtcctttcttatagg-----gtttcaattcatgtataatctgctaaatctg----aaaacct---tgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT
    | |  || || ||  |    |  |     | ||   ||| | |      || |   |     |  |||||   ||||||     ||| ||   || |||||| ||||||||||||||| || | || || |||||| ||||||| ||||||||||| || ||||||||||||||||| |||||||| |||||||| || |
----gtctactaatcttctctctcagcatttctttctgatttagaagccaccattactgctggctaaccatctgtagaatctgcattgaaatctctttgcacagGTGGTCAACTGTAAAGATGAGCTTGCACAATATTATTTGATGGATTGCATAATTCAGGTATTTCCTGATGAGTACCACTTGCAGACACTTGAGACGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttatagggtttcaattcatgtataatctgctaaatctgaaaaccttgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT
                              tgctaaa  putative branch site (score: 2)
               aattcatgtataat  TA-rich tract