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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaatatttttctgctcgtccagatgtaattttgttttgaatacatctcttaggcaagtgagtctattatctttttgctgtgaatttcatggatactcatatttttctacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG

Basic information

species Arabidopsis thaliana
transcript AT3G43300.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: LOC_Os07g37750.1 (Oryza sativa), 3'ss of exon 12
-------gtacaatatttttctgctcgtccagatg-----taattttgtt--ttgaatacatctcttaggcaagtgagtct-----attatctttttgctgtgaatttcatgg-atactcatatttttctacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG
         |    |||| |    ||    |  ||     ||||  | ||  |   || ||| |  ||      |   | |     || |||||  |||||   |||  ||   ||     |  |||   |  ||||||||| |||||||||||||| ||| | || |||||||  ||  ||| |||||| ||||||||||| || ||||  |||||| | ||||| ||||||
gtatgactcatttgatttgtagaatctcaaaagtgatgtttaatcctatttgtcatattcattttctatttgttttgctatcttagatcatcttggtgctgcacattatatattatgtgatttatttgtcaaccagGATGCTGGAGAAAGTCTGCAAGGATTCACAAATGCTTGCAGACATGTTTGTAAATTATGATTGTGACCTTGAGGGGCCAAACCTTTTTGAACGCATG

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GRMZM2G335287_T01 (Zea mays), 3'ss of exon 13
------gtacaatatttttctgctcgtccagatgta---attttgttttga-atacatctcttaggcaagtgag---tctattatctttttgctgtgaatttcatggatactcatatttttctacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG
       | |  |    || ||     |||| ||||   ||  |||    | | |||    || | ||   |||   |||  ||  |||||| | |||  ||  ||||  || ||    ||| |  ||||||| | |||||||| ||||||||||| || |||||||  ||||||| ||| |||||||| |||||||| ||||  |||||  | ||||| |||| |
gtgactattcttttcccttatggaatcccagctgtatgcataatgtgcgaacagacacagtttggtcattcgagacatctggtacatttttgtt-tgatgttattgga--ctgat----ttcgaatcagGATGTTGGAGAAAGTTTGCAAAGATCCCCAAATGCTTGCAGATGTGTTTGTGAACTATGACTGTGATCTTGAGGGACCAAATCTTTTTGAACGCACG

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 15
gtacaatatttttct--gctcgtccagatgtaattttgttttgaatacatctcttagg----caagtga-gtctattatctttttgctgtgaatttcatggatactcatatttttctacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG
||| ||| || |||   | |  |  | || |   ||  || | ||      |  |       |  |||  || |   ||   ||| |  |    || ||      |  | |   | |  |||||||| | |||||||| || || ||||| ||||||||||||||  | | ||| || |||||||||||||| ||||| |||||||||||||| || |||
gtataatgttcttcctggttgattaaaatattgcttgattataaactttgttaatgaaatttcttgtgttgtttgccattccttttccatattgttaatttggtttagtgtgggttt--gcagGATGTTAGAGAAAGTATGTAAGGATCCACAGATGCTTGTTGACATCTTTGTGAATTATGATTGTGATCTTGAGGCACCAAACTTGTTTGAACGAATG

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 15
gtacaatatttttct--gctcgtccagatgtaattt-tgttttgaatacatctcttaggcaagtgagtctattatctttttgctgtgaatttcatggatactcatatttttc-----tacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG
||| ||| || |||   | |  |  | || |   || |||| | ||    |   | | | |  |   | | || | |      | |     |||| | || |    |||        |  |||||||| | |||||||| || || || || ||||||||||||||  | | ||| || |||||||||||||| ||||| |||||||||||||| || |||
gtataatgttcttcctggttgattaaaatattgcttgtgttataaactttttgttaatgaactttcttgtgttgtttgccatttcttttcctcattgttaatttggtttagtgtgggtttgcagGATGTTAGAGAAAGTATGTAAGGACCCACAGATGCTTGTTGACATCTTTGTGAATTATGATTGTGATCTTGAGGCACCAAACTTGTTTGAACGAATG

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
gtacaatatttttctgctcgtccagatgtaattttgttttgaatacatctcttaggcaagtgagtctattatctttttgctgtgaatttcatggatactcatatttttctacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG
    |  ||   |  | || |  | ||  |     |  |||   | || ||| |      | |   |  |   |||   |||||| | || ||  |   | |  ||||    ||||||||||||||||||| || |||||||| ||||||||||||||  | ||||| ||||||||||||||||| |||||||||||||||||||||||||||
---aacaatcaattagatccttgaaattaag----gaattgtgcagatttctaac----attaacttggttcttttcctctgtga-tctcctgattgaacctgatttt----gcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtctattatctttttgctgtgaatttcatggatactcatatttttctacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG
                                        tatttttct  CT-rich tract
                                 atactcatattttt  TA-rich tract