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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcatctaactcaatgtgaaagcaaaactgttcattaggcttcctcttaactattttcaaatgcttgtgagctcatttcgtttatatggattttgtagGATTATGTAGCTACTCGGTGGTATCGTGCCCCTGAACTCTGTGGATCGTTTTTCTCCAAA

Basic information

species Arabidopsis thaliana
transcript AT1G18150.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------gtgagtcatctaactc-aatgtgaaagcaaaactgttcattaggcttcctcttaactattttcaaatgcttgtgagctcatttcgtttatatggattttgtagGATTATGTAGCTACTCGGTGGTATCGTGCCCCTGAACTCTGTGGATCGTTTTTCTCCAAA
                                                            | ||   | || ||  || ||| || ||||    ||  ||  | | |    | |   || | ||    |||    || ||||  | ||      |  |  |||| ||||| || ||||||||||||||||| |||||||| ||||| || |||||||| |||
gtaagtattctagcaaattgatgcacttattagttctgttttgcttctgcttttgtcttttaagatttttagctggaaagtgcaatcaaattcattatttctgttccagaatcatccttctaaatattttgctgactgattttatctactctcttacta-agGACTATGTTGCAACTCGGTGGTATCGTGCACCTGAACTATGTGGTTCTTTTTTCTCAAAA

upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 3
-----------------------------------------gtgagtcat---ctaact--caa---tgtgaaagcaaaactgttcattaggcttcctcttaactattttcaaatgcttgtgagctcatttcgttta-tatggattttgtagGATTATGTAGCTACTCGGTGGTATCGTGCCCCTGAACTCTGTGGATCGTTTTTCTCCAAA
                                          | | | ||   || |||   ||   | |||  |  ||| ||   || || | ||    |  ||   |  |  || |  ||| || ||||  | || |||| ||     |||||||||| || ||||||||||||||||| |||||| | ||||| || |||||||| |||
gtgagtgcaccattgtgtgaccatgttgaactgttacatttatcaattatgttctgacttttaagcttttgagtgggaaattgcaaat-agccatctaggtttctccctaaacctgttgctga-cttattttatctactatgaata----agGATTATGTTGCAACTCGGTGGTATCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA

upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------gtgag-tcatctaactcaatgtgaaagcaaaactgttcattaggcttcctcttaactattttcaaatgcttgtgagctcatttcgtttatatggattttgtagGATTATGTAGCTACTCGGTGGTATCGTGCCCCTGAACTCTGTGGATCGTTTTTCTCCAAA
                                                            | || |  |||     || ||| || ||||    ||  ||  | | |    | | | || | ||    |||    || ||||    |      | |    |||| ||||| || ||||||||||||||||| |||||||| ||||| || |||||||| |||
gtaagtattctagcaaattgatgcacttattatttctgttttgcttttgcttctgccttttaagattttctgctggaaagtgcaatcaaattctttatttctgttccagaatcattcttctaaacattttgctgactgattttacctgctcttacta---agGACTATGTTGCAACTCGGTGGTATCGTGCACCTGAACTTTGTGGTTCTTTTTTCTCAAAA

upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtcatctaactcaatgtgaaagcaaaactgttcattaggcttcctcttaactattttcaaatgcttgtgagctcatttcgtttatatggattttgtagGATTATGTAGCTACTCGGTGGTATCGTGCCCCTGAACTCTGTGGATCGTTTTTCTCCAAA
       || || ||   | |   |   ||| | |       ||||     |   |||||| | | |    ||||    |  |  |||| |  |||||| ||||||| || || ||| | ||||||||||| |||||||||||||| |  ||||||||||||
-----gtatatatctattttttgcaatgaaattat-----gagctttagtgt---tattttaacagg---atgagtctgtaac--ttatctacattttgaagGATTACGTGGCAACTAGATGGTATCGTGCTCCTGAACTCTGTGGTTGCTTTTTCTCCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttaactattttcaaatgcttgtgagctcatttcgtttatatggattttgtagGATTATGTAGCTACTCGGTGGTATCGTGCCCCTGAACTCTGTGGATCGTTTTTCTCCAAA
 tcttaac  putative branch site (score: 2)
     aactattttcaaat  TA-rich tract