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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag

Basic information

species Arabidopsis thaliana
transcript AT3G52560.4
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G071010_T01 (Zea mays), 5'ss of exon 2
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
 ||||| || ||||| |||||||| ||||||||||||||||||||||  ||||||||||| ||||| || |||||||| |||||||| || |||||||| ||    | |   | |  |    ||  | | |||  || | | ||| || ||  ||||     | || || | ||| |  |    | || | | |  |   |||    | |||                                                                          
AGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacacaatctcatc---ctctttatatttcccgt-gcctttattta-attaa-----ggttagacacgcacaactgccaactactagtactttgctgc---aactacc-------------------------------------------------------------------------

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G027378_T01 (Zea mays), 5'ss of exon 2
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
 ||||| || ||||| ||||| || ||||||||||||||||||||||  ||||||||||| ||||| || |||||||| |||||||| || |||||||| ||    | |   | |     |||  ||     | ||||  | ||| || ||  ||||     | || |  | ||| |  |    | || | | |      |||    | || |                                                                         
AGAGAAGGGCATTGGTGATGGGACAGTGAGCTATGGAATGGATGATGCTGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacacaatctc----atcctctttatctttcctgtgcctttattta-attaa-----ggttaggcacgcacaactgccaactactagtactctgctgc---aattata-------------------------------------------------------------------------

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G35790.1 (Glycine max), 5'ss of exon 2
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
 || ||||| || || |||||||| || |||||||||||||||||||| || ||||| || ||||| ||||||||||| ||||| || || ||  | || |||  |||    || ||| |  ||||    ||| |  ||     ||| ||||||  |    || |    ||    ||  ||| |   |   ||   |  |    |                                                                                 
AGAAAAAGGAATCGGAGATGGAACAGTTAGCTATGGAATGGATGATGGTGACGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGCCCCTATAATgtaaatat----ttatctattactgccttgattttttttttctatcaaatatgtgca----tgctaaatgagctgtattttatttgaaccagcgaattttcatgtatc------------------------------------------------------------------------------

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G38450.1 (Glycine max), 5'ss of exon 2
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
 || ||||| || || ||||| || || || ||||||||||||||||| |||||||| || ||||| ||||||||||| ||||| || |||||  | || |||  |||    || |||    ||||    ||| |  ||  |||||| ||||||  |    ||||    ||    ||  ||| |  || | |    |  |    | | |                                                                             
AGAAAAAGGAATAGGAGATGGCACAGTTAGTTATGGAATGGATGATGGTGATGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGTCCCTATAATgtaaatat----ttatctaacactgccttgatttttttt--tcttcaaatatgtgca----tgttaaatgagctgtattttatttgtactagtgaattttcatgtagcaa----------------------------------------------------------------------------

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G21780.1 (Glycine max), 5'ss of exon 1
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
 || ||||| ||| | ||||| ||  | ||||||| |||||||||||| |||||||| || ||||| ||| ||||||||||||| || || || || || |||   |||| | | | || |     ||  ||||  | |  ||    | | |   ||  || ||| | ||  ||||    ||| |     |||  |  |     |  ||                                                                             
TGAAAAAGGAATTAGAGATGGCACAATTAGCTATGTAATGGATGATGGTGATGACATTTACATGCGCTCTAGGACTGGCACCATTATTGGCCCCCAAAATgtaa--atatttctctgttcactctgtag-attcatccttatcgatgtgtgt-ccaatgatagttatcagttgcatg---taaga--ggctgcccccaaaaatgttaaa-----------------------------------------------------------------------------

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0080g01080.t01 (Vitis vinifera), 5'ss of exon 2
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaatt-gttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
|||||| |||||||| ||||| |||||||| |||||||||||||||||||||||||| || ||||| |||||||| || ||||| || ||||| ||||| |||   |               ||   |||||| | ||| |   | | || | |||   |||  || ||      |  ||| |||  | ||    |    |  |||  | |                                                                            
GGAGAAGGGTATTGGAGATGGTACTGTGAGTTATGGAATGGATGATGGAGATGACATATACATGCGGTCTTGGACAGGAACCATAATTGGTCCACACAATgtaagca-------------gccttaaaacatttttctt-gctgtaacatttcttattcattcattatgttccaaaaggatcaatcctcttccagtggggtgccttaaactttt-------------------------------------------------------------------------

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctc-cttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
 |||||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  ||||| |||||||| ||||| || || ||        ||  ||  |  ||  || | |     ||||| |||  |  ||||  |  ||    |    | ||   ||| ||   ||   | ||  |    |     || ||   ||                                                                                 
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGG--------ACCAAGCCACgtcagttccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca-------------------------------------------------------------------------------

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S60_129V6.1 (Physcomitrella patens), 5'ss of exon 3
GGAGAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACgtagttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgcttggaatacagaacatcaaaaccacattgttttctaggcattgatcttatcgacatacaatctcttaagctttatttgagcag
 ||||||||||| || ||||| || ||||||||||| |||||||| || || ||  | | |||||| |||||||| ||||| ||||| ||        ||  ||  || |   || |||     |||||||||     | | | | |   ||||        || || |   ||  | | ||  |  | | |         || |  | ||     ||| |  ||                                                             
TGAGAAAGGTATCGGCGATGGCACAGTGAGCTATGGCATGGATGACGGCGACGATGTATTTATGCGCTCTTGGACCGGCACTATCATTGG--------ACCAAGCCATgtgagttccttgcagagctaacatttgtggtagaccttacgaatgt--------gtgttaaacggcgaaaactaggagcaatgg---------gcataaactatgatgcattatcac-------------------------------------------------------------