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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatccttagtggtgaatattcaagtcagataatattaatatatactcttctgaaaatttattactggcctgtatgctgaaatcgcttgaaaagaatataggaatattgataaagaacattcatatggttgcagGAGTTTAATAAACATGACAAAGAACCAGCAAAGTATATTAAACAATGGAAAGGTGTAAAGCCAAAGACTGGTGCACCATACACTTGCGACGTGGGATATG

Basic information

species Arabidopsis thaliana
transcript AT1G13180.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13180.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G30630.1 (Glycine max), 3'ss of exon 4
gtaatccttagtggtgaatattcaagtcagataatattaatatatactcttctgaaaatttattactggcctgtatgctgaaatcgcttgaaaagaatataggaatattgata-aagaacattcatatggttgcagGAGTTTAATAAACATGACAAAGAACCAGCAAAGTATATTAAACAATGGAAAGGTGTAAAGCCAAAGACTGGTGCACCATACACTTGCGACGTGGGATATG
                                   | |   || | || ||||      | | |   ||  ||||  || || |    |   ||   | |     |    | | ||  | | |||| |  |  ||||| |||||||| ||||||||||| ||||| |||||||| || || |||| |||| | || |||||||| || ||||||||  | || ||  | || ||||
-----------------------------------actttaatttgcttttcttttttgtgaatcaagggatgta-actaaagttatcttttaaacttgttaattttcctacataaccagactcattttctctcagGAATTTAATAAGCATGACAAAGAGCCAGCCAAGTATATCAAGCACTGGAGAGGTATTAAACCAAAGACGGGGGCACCATATTCCTGTGATATTGGCTATG

upper sequence: AT1G13180.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 4
gtaatccttagtggtgaatattcaagtcagataatat-taatatatactcttctgaaaatttattactggcctgtatgctgaaatcgcttgaaaagaatataggaatattgataaagaacattcatatggttgcagGAGTTTAATAAACATGACAAAGAACCAGCAAAGTATATTAAACAATGGAAAGGTGTAAAGCCAAAGACTGGTGCACCATACACTTGCGACGTGGGATATG
                                ||| |    | | |  | || ||  |||  |    ||    | | | |   |||  |||||     ||        |   |||  |    |||| |  |  ||||| |||||||| ||||||||||||||||| |||||||| || || |||| |||  | || |||| ||| || ||||||||  | || ||  | || ||||
--------------------------------aatttgctttttttttttttttgtgaatcaagggatgtaacgaaagtt---atcttttgaacttgtta-gttttcctacgtaacaatggctcattttctctcagGAATTTAATAAGCATGACAAAGAACCAGCCAAGTATATCAAGCATTGGAGAGGCATTAAACCAAGGACAGGGGCACCATATTCCTGTGATATTGGCTATG

upper sequence: AT1G13180.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G13780.1 (Glycine max), 3'ss of exon 4
gtaatccttagtggtgaatattcaagtcagataatattaatatatactcttctgaaaatttattactggcctgtatgctgaaatcgcttgaaaagaatataggaatattg-ataaagaacattcatatggttgcagGAGTTTAATAAACATGACAAAGAACCAGCAAAGTATATTAAACAATGGAAAGGTGTAAAGCCAAAGACTGGTGCACCATACACTTGCGACGTGGGATATG
                                  |  |   || | | |||||     |  || |  ||  ||||  || || | |  |   ||   | |||   |  |  ||||       | |  |  |  ||||| |||||||| ||||||||||||||||  ||||| || || || |||| |||| | || |||||||| || ||||||||  | || ||  | || ||||
----------------------------------ttctttaatttgcccttctttttgtgaatcaaggga-tgta-actaaagtggtcttttaaatttttagttttcctacataacattagctaaatttctctcagGAATTTAATAAGCATGACAAAGAACCAGGCAAGTACATCAAGCATTGGAGAGGTATTAAACCAAAGACGGGGGCACCATATTCATGTGATATTGGCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatcgcttgaaaagaatataggaatattgataaagaacattcatatggttgcagGAGTTTAATAAACATGACAAAGAACCAGCAAAGTATATTAAACAATGGAAAGGTGTAAAGCCAAAGACTGGTGCACCATACACTTGCGACGTGGGATATG
                         tattgat  putative branch site (score: 3)
                       aatattgataaagaa  TA-rich tract