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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtctcaatataaatgttatacattatgactttaaaaaaactgttattgttgtttggaattcaaatctatgttgttggatttgaatttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA

Basic information

species Arabidopsis thaliana
transcript AT5G65930.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os04g57140.1 (Oryza sativa), 3'ss of exon 9
gttagtctcaatataaatgttatacattatgactttaaaaaaactgttattgttgtttggaattcaaatctatgttgttggatttgaatttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
                           | |||     ||  |  ||||    |  | |    ||     |  | ||     |  | | ||  || | ||| ||  || ||||||| ||||| || |||||||| || |||||||| || ||||| |||||  | || |||||||||||||| ||||| || || ||||| || || ||||
--------------------------gtctgatgcctaaccacatgttgaaatgctatacgttttctgccagtttt-----agctaatttctttttctgcgttaatgcagGTTCATTTTTTCCGTCCGGTTCCCAAGGAATATCTTCATTCTGCAGAACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G070273_T01 (Zea mays), 3'ss of exon 9
gttagtctcaatataaatgttatacattatgactttaaaaaaactgttattgttgtttggaattcaaatctatgttgttggatttgaatttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
                           | |||  |  |  |   ||| || |  | ||   ||||   |||     ||   | |    ||   | | ||| |   || ||||||||||||| || |||||||| || |||||||| || ||||| |||||| | ||||||||||||||||| ||||| || ||||||||||| || ||||
--------------------------gtctgatctcgacca---tgtaatggaagcttcatattctt-tctgctaagtaaaactgaccttgaatttctgcatgaatgcagGTTCACTTTTTCCGCCCGGTTCCCAAGGAATATCTTCATTCTGCAGAACTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTCTTCTTTAAAA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G423861_T01 (Zea mays), 3'ss of exon 10
gttagtctcaatataaatgttatacattatgactttaaaaaaactgttattgttgtttggaattcaaatctatgttgttggatttgaatttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
                  ||   |  | |  |    |   ||||| | ||  |  ||  |   | || |  |      ||   |||||||| |     || |   || ||||||||||||| || || ||||| || |||||||| || ||||| ||| || | ||||||||||||||||| ||||| || |||||||| || || ||||
------------------gtctgatctcaccatgcgatggaaact-tcatattctttctg---ttaagtaaa----actgatcttgaatttat-----gcatgaatgcagGTTCACTTTTTCCGTCCAGTTCCCAAGGAATATCTTCATTCTGCAGAATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 11
gttagtctcaatataaatgttatacattatgactttaaaaaaactgttattgttgtt-tggaattcaaatctatgttgttggatttgaa---tttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
||  | || |||  |||  |  |  |     || ||| | |   | | |||    || |  ||     |  | || | ||   | ||     ||| ||| |   ||   | ||| |||| ||||| || || |||||||| |||||| ||||||| |||||  |  | ||||| ||||||||||| |||||||| ||||| ||||| || ||||
gtatgactaaatgaaaaactagttaaactaaacattatatagtttatcattacaattattaaagaatgaattgtgcttttaattgtgtgccttttcttgatccattggctatagATTCATTTTTTCCGTCCAGTTCCTAAGGAATATTTGCACTCAGCTGAGTTGAGAGACATAATGCAATTTGGAAGCAGTAATACTGCAGTCTTCTTTAAAA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA16G21340.1 (Glycine max), 3'ss of exon 14
gttagtctcaatataaatgttatacatta----tgactttaaaaaa---actgttattgttgtttggaattcaaatctatgttgttggatttgaatttg-ttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
||  | || || | |||  | |    |||      || ||| | |    ||| |||   || ||   || | ||  || || | ||   | ||  |||  ||| |   ||   | ||| |||| ||||| || || |||||||| |||||| ||||||| |||||  |  | ||||| ||||||||||| ||||| || ||||| |||||||| ||||
gtatgactaaacaaaaaaataactagttaaactaaacattatatagtttactattacaattattaaaaaatgaa--ctgtgcttttaattgtgttttttcttgatcaattggctatagATTCATTTTTTCCGTCCAGTTCCTAAGGAATATTTGCACTCAGCTGAGTTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTCTTTTTTAAAA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 11
gttagtctcaatataaatgttatacattatgactttaaaaaaactgttattgttgtttggaattcaaatctatgtt--gttggatttgaatttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
|| || || || || | |    || ||| | |  ||| ||    |   |||  | |||  ||   || | |   ||   ||| || |   ||| ||  |   ||  |   |||| || ||||| || || ||||| || |||||| |||||||||||||| |  | ||||| ||||||||||| ||||| || ||||| || ||||| ||||
gtaagact-aacatgatt----taaattttaagattataaggtttaaaatttctttttaaaaacgaattgtgcttttaattgaatgt---ttttttaataaattattcccagGTCCATTTTTTCCGTCCCGTTCCAAAGGAATATATGCACTCTGCTGAATTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 10
gttagtctcaatataaatgttatacattatgactttaaaaaaactgttattgttgtttggaattcaaatctat-gttgttggatttgaatttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
|| ||||  | |   | | |||||   |||   |  |    || |    ||| |||||| | |  | |||||| |     | |  |||||||| |  || | ||||   ||||||| ||||| || || ||||| ||||| ||| |||| |||||||||||| | || || ||||||||||| ||||| || |||||||| ||||| || |
gtgagtcagagttatattattataatgtatctgtacattgcaaat----ttgatgtttgaattatagatctattgcaacagaacatgaatttgattgtt-cattctcacagGTTCATTTTTTCCGTCCAGTTCCAAAAGAGTATTTGCATTCTGCTGAACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S83_25V6.1 (Physcomitrella patens), 3'ss of exon 11
---------------------------------------------------------------------------gttagtctcaatataaatgttatacattatgactttaaaaaaactgt-----tattgttgtttggaattcaaatctatgttgttggatttgaatttgttgtttgctttctt--------gtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
                                                                             | ||||   | |   |         | | |  ||||  | |||       |  |||   ||| | |   | | | | |  |    | | | |||||| ||| || | ||        | |||| ||||||||| |||||||||| || || ||||| |||||||| ||  | || || |||||||| |||||||| |||||||||||||| ||||| ||||
gtaagtttcatggacctgtagctaagtgggttagctttgctgagtttcgcaattccttattatcaagtcagtttgcatggtcttcgtgtttttagagctttgtgtcatgttaagcagactacacgtcttctgtaacttgtagtctgattttttctattccattctcactttgtttttttctattttcactcttggcagGTGCACTTTTTTAGACCGGTTCCAAAGGAGTATCTACACTCTGCAGAGTTGCGAGATATCATGCAGTTTGGCAGTAGTAACACTGCTGTATTTTTTAAAA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S199_47V6.1 (Physcomitrella patens), 3'ss of exon 12
gttagtctcaatataaatgttatacattatgactttaaaaaa-actgttattgttgtttggaattcaaatct--atgttgttggatttgaattt--gttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
             ||| | ||    |  |||  | |||||   ||   || | || |  |||     ||| |  |   ||     | || ||     |   | | |||| |  |||| ||||| ||  | || || || || || |||||||||||||| || || ||||| ||||||||||| ||||| ||||| ||||| || ||||| || |
-------------taatttttgctaa--atgcttctaaaatgtacatctaattttatgaggagcatgaatgttcagaatgcaccttctgtatcctaatctctggttttcgtacagGTGCACTTCTTCAGGCCTGTACCAAAGGAGTATCTGCACTCTGCGGAGCTGCGTGATATCATGCAATTCGGCAGTAGTAATACTGCCGTTTTTTTTAAGA

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S364_50V6.1 (Physcomitrella patens), 3'ss of exon 12
---------------------------------------------------------gttagtctcaatataaatgttatacattatgactt-taaaaaaactgttattgttgtttggaattcaaatct--atgttgttggat---ttgaatttgttgt-ttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
                                                            ||   |  | | |   || | | | ||   || |   |  ||| | ||| | ||  || ||     | |  | |||||||  |   || | |||||    || || | ||| |||| || ||||| ||||| || |||||||| ||| |||| || |||||||| || ||||| ||||||||||| ||||| ||||| || |||||||||||||
gtatgtgggagcgccttcatctttgtatgctttatcacttccataaacatttttatgaccagctgcgttgtgacgcttttccctcatatgttatttcatgactttgattatcgtggggtatagggtttttgacgttgttgcctgcatttattttgtcacgtttctgtattgcagGTGCATTTTTTCCGACCTGTGCCTAAAGAGTATTTGCATTCAGCTGAACTGCGCGACATTATGCAATTTGGTAGCAGCAACACAGCCGTCTTTTTCAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggaattcaaatctatgttgttggatttgaatttgttgtttgctttcttgtagGTTCACTTTTTTCGACCGGTTCCTAAAGAATATCTGCACTCTGCTGAACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAA
                                     ttgtttgctttctt  CT-rich tract
                          atttgaattt  TA-rich tract