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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcttagatttgtgtgtttatataattgagattgttctagaagtttctgatgctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT

Basic information

species Arabidopsis thaliana
transcript AT1G52360.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GRMZM2G095348_T01 (Zea mays), 3'ss of exon 16
--gtaagtgct-tagatttgtgtgtttatataattgagat-tgttctagaagtttctgatgctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
  |    | || || |    ||| |   |    |||  |  | | ||   | ||||||   ||           |||   || |||| | || |||||||| ||  | || ||  |||||||||||||||| ||||||||||| || ||||| ||  | || | |||||| ||| |  | || || 
gtgcgctttctctaaaacaatgtttcctttcttttgtaacatctgctgttaatttctgtgactaacatataagcttg---atacagTATCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GRMZM2G086015_T01 (Zea mays), 3'ss of exon 1
gtaagtgct-tagatttgtgtgtttatataattgagattgttctagaagtttctgatgctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
||| ||  | | ||      || ||   |   |  |     |||   | |||||    ||        | ||    | | |||||| || |||||||| ||  | || ||  |||||||||||||||| ||||||||||| || ||||| ||  | || |   |||| ||| |  | || || 
gtatgttttctcgaaaacaatgcttcctttcctttgtagcatctgttaatttctctgactaacaaatagctt----ggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 16
gtaagtgct-tagatttgtgtgtttatataattgagattgttctagaagtttctgatgctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
||| ||  | | ||      || ||   |   |  |     |||   | |||||    ||        | ||    | | |||||| || |||||||| ||  | || ||  |||||||||||||||| ||||||||||| || ||||| ||  | || |   |||| ||| |  | || |||
gtatgttttctcgaaaacaatgcttcctttcctttgtagcatctgttaatttctctgactaacaaatagctt----ggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCT

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GRMZM2G448913_T01 (Zea mays), 3'ss of exon 5
gtaagtgct-tagatttgtgtgtttatataattgagattgttctagaagtttctgatgctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
||| ||  | | ||      || ||   |   |  |     ||||  | |||||    ||        | ||    | | |||||| || |||||||| ||  | || ||  |||||||||||||||| ||||||||||| || ||||| ||  | || |   |||| ||| |  | || || 
gtatgttttctcgaaaacaatgcttcctttcctttgtagcatctattaatttctctgactaacaaatagctt----ggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 16
gtaagtg---cttagatttgtgtgtttatataattgagattgttctagaagtttctgatg--ctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
|||||||   |||    |||  |  ||  |   || | ||||   ||    |  ||  |   |||||   |  || | |   | ||||||||| || |||||  || |  ||||| |||||||||||||||| ||||||||||| |||||||| || |  |||| ||| ||  | ||  |||| || 
gtaagtgaaacttctgcttggattattcaaagttttaaattgcaataatcttgactatttttctgtttatcaattgtttttct-cagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGATATTCTGCCATCAATCCCC

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
gtaagtg---cttagatttgtgtgtttatataattgagattgttctagaagtttctgatg--ctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
|||||||   |||    |||  |  ||  |   || | ||||   ||    |  ||  |   |||||   |  |||| |   | ||||||||| || |||||  || |  ||||| |||||||||||||||| ||||||||||| |||||||| || |  |||| ||||||  ||||  |||| || 
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtg---cttagatttgtgtgtttatataattgagattgttcta-----gaagtttctgatgctg---ttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
|| ||||    || |        |   |    |  | | ||||| ||      |  | | |  |  |    |     |   || |  ||||||||| || || ||||| ||  | || ||  |||||||||||||||||||||||||||| |||||  | ||    |||| |||| | |||||| ||||||| 
gtgagtggacttttggcagaaagggggagtggagggtggttgttgtattgctaacatctttattattaagttggtttttccttttcaatgcagTGTCATGGGATACACGTTACTTCTCAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGTGACCTGGAACGGGCCAATGAACTTTTACCTTCAATTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattgagattgttctagaagtttctgatgctgttcccctgttttgtggatgcagTGTTATAGGGTACACCTTGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCT
                      ttctgat  putative branch site (score: 3)
                                 ttcccctgttttgt  putative PPT