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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttccctcaaagttttttgtttcatcttgtagaatgttcacagttagtactaagctctgcaacttttctatgtctacagTTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTG

Basic information

species Arabidopsis thaliana
transcript AT3G55020.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os01g61860.1 (Oryza sativa), 3'ss of exon 8
--------------gtgagttccctcaaagt-tttttgtttcat---cttgtaga-atgttcacagttagtactaagctctgcaacttttctatgtctacagTTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTG
               |   ||   | ||| | | | | | ||||    | | | | ||||| || |  | |  | |   ||   |    |   | | | ||||  |||| |||||||| || || || ||||| || |||||||| || ||||||||||| || || |||||||| ||||| |||||||||||||
gtttgcgcattattcttgtttgtattaaaatatctgtatatcatgacttggcatatatgttaaccgacaattttgactacttttatgcatggttttttgcagTAAATCACCTGGATTACCTCGGCGTTCAAGTTGCATGGGTTACTGGACCATGGTTTCTATCTATATTCATGAACATGCTACCATGGGAAAGTG

upper sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G051050_T01 (Zea mays), 3'ss of exon 8
--------------gtgagttccctcaaa-----gttttttgtttcatcttgtagaatgttcacag----ttagtactaagctctgcaacttttctatgtctacagTTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTG
               ||| |    | |||     ||    |||  |   ||||    |  | | |       |||| || | | |   |   ||   || |  |||   |||| |||||||| |||||| | ||||| || |||||||| |||||||||||  | |||||||||| |||| ||||||| ||||||||||
gttagcaacctatcatgaataaattgaaatattggtggcatgtgactctttgtgccctaataaaaaaatccaagtattaggatttaacatactttcttgac-gcagCAAATCACCTGGATTACCTTGGACTTCAAGTTGCATGGGTTACTGGGCCATGGTTCTTATCCATCTTCACGAATGTGCTTCCTTGGGAAAGTG

upper sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G094951_T01 (Zea mays), 3'ss of exon 8
------------------------------gtgagttccctcaaagttttttgtttcatcttgtagaatgttcacagttagtactaagctctgcaacttttctatgtctacagTTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTG
                               |  ||  | |   | | |||   | |   | ||| ||  | ||     || |  | | | |   |   |||  ||  | |||   |||| |||||||| |||||| | ||||| || |||||||| |||||||||||  | ||||||||||  ||| ||||||| ||||||||||
gttagaaacctatcatgaatgaattgtaatattggtggcatgtgactctttctgtcccattggtaaaaaatcca-----agcataaggatttaacatacttccttga-tgcagCAAATCACCTGGATTACCTTGGACTTCAAGTTGCATGGGTTACTGGGCCATGGTTCTTATCCATCTTCACAAATGTGCTTCCCTGGGAAAGTG

upper sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 8
----gtgagttccctcaa---agttttttgtttcatcttgtagaatg---ttcacagttagtactaagctc------tgcaacttttctatgtctac---------agTTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTG
    || |  |   | ||   | |||| | ||| | ||   | | ||   ||      ||| | |    |       ||  | ||   | ||| |||         ||   |||||||||||||||| |||||||| ||||| |||||||| || |||||||| || ||||| ||  |||| |||||||| ||||||||||
gtttgtaaactattttaattcatttttgtctttgaactcacaaagtgaattttgtttctagcattccatttcttatttgttatttaattgtgtatacttattttgcagCCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG

upper sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------gtgagttccctcaaagttttttgtttcatcttgtagaatgttcacagttagtactaagctctgcaacttttctatgtctacagTTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTG
                               ||   |    |||   || || |||| |  | |      ||     |   | || |  |   || ||||      | | ||||| |||| ||||||| ||| |||||||| ||||| |||||||| || || |||||||||||||| || |||||||||||||||||||||||||
gtttgtttcttgttgcatattttattatcgttgcccttttccaattattattttttctttatatgaggcattttggatggcttcttattt---cacctttgtgtcatgtgcagTTAATCACCTGGATTTTCTGGGAGTGCAGGTGGCATGGGTTACTGGACCGTGGTTTCTTTCCATTTTTATGAATATGCTTCCATGGGAAAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgtagaatgttcacagttagtactaagctctgcaacttttctatgtctacagTTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTG
                                      cttttctat  CT-rich tract
                                       ttttctat  TA-rich tract