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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag

Basic information

species Arabidopsis thaliana
transcript AT1G52360.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgc-tgaaatggt--ctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgca-tgttcatcttcag------
||| || |||||||| || || |||||||| ||||||||||||||||| || ||||| ||||| |||||||| ||||| || |||||||| ||  |||||||    ||  | ||  || |||||       |||  |  ||   |   || |     ||   |||   |||  |||   ||  | | || |       
TCAAATCTTCGAGGGGCATTCTCACTATGTTATGCAAGTCACATTTAACCCGAAAGATACCAATACTTTTGCTAGTGCTTCACTTGATCGCACAGTAAAGgtttgcgattttgttccttacatttgcttggcatagtttttgcattt-ctaacatttcttggtctggatttgaatgtggtgcccttatttaatttcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGg----tgctgaaatggtcta-acattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag------
||| || || |||||||| |||||||| ||||||||||| || || |||||||| || || ||||||||||| |||||||| ||||| || || | |||||    |     |||    ||  || || |   |  | |   | ||   |  ||  |  | | ||| |  |     |||  | |  | ||  |       
TCAAATCTTTGAGGGACATTCACACTACGTGATGCAAGTTACTTTCAATCCAAAGGATACTAACACTTTTGCAAGTGCATCTCTTGACCGAACTACAAAGgtctgtttcacaatctcttatgcagtggatgttattcacaatatatggctttttatgaggtgatt-tgtgcactaatggttctaaaactgaaacaacag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgc-tgaaat----ggtctaaca---ttgaaacatcattatggt---ttagtccgcttagtccgctcattc-tacgtttacatgcatgttc-atcttcag--------
||| |||||||| || || || ||||||||||||||||| |||||||| |||||||| |||||||| ||||| ||||| ||||| ||||| || ||||||||   || |||    | | ||| |    ||     |||  ||| |   ||| |   | |  |  |||  ||| ||  || |     || | | |  ||| |        
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgt--gctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag-------------
||| || || ||||| ||||| |||||||| ||||||||||||||||| || |||||||| || |||||||| ||||| || |||||||||||  |||||||   |  | ||| | ||   |      || || |||  ||| |   ||   |   ||| ||    |  |  | |     |  |||| |              
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaattt-ctcgttttcctctttgctagccttaacgagcaattttctttacttgaaatttctag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G124886_T04 (Zea mays), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag-------------------------------------
||| ||||| || || || || ||||||||||||||||| |||||||| |||||||| || ||||| ||||| ||||| ||||| ||||| || ||||||||  ||   |       | || |||    ||| |||||  | || |   ||    | |||        ||| ||     | | ||||                                      
TCAAATATTTGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACAAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgt-ttgtgttatctccgctttaaaa----attctggtt--ggccacaatgttgcattatttggtaccgacaggcgacagctttttcatagcttgatggtgatatcctattttttgtcaatatcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacat--tgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatg---catgttcatcttcag
||| ||||| |||||||| ||||||||||||||||| || || || |||||||| || |  ||||| ||||| |||||||||||||| || || | ||||||  ||   |  |  || ||  || | |   ||  |   |  | |  | |  |  | || || | | |||| |      |  || | || |||
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgta-tgcctttttgcaatattatgcagcgagatgttaactgcgact-catgatgtgatc-ttgttcatttatacttcttactttgaactgcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag------
||| || || |||||||| ||||||||||||||||| || || || || ||||| || |  ||||||||||| |||||||| |||||||| || | |||||||| |   ||     |   || | ||  ||  | |||  | | |  |       | ||  |     | ||| | | |   |||  |       
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgc-gccttgacaatattatggagcaagatgttagttgcgactgagtcaagatgtgatcttgttcattcatacttctcactctgaaattgtag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G419984_T01 (Zea mays), 5'ss of exon 5
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacat--tgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatg---catgttcatcttcag
||| |||||  ||||||| ||||||||||||||||| || || || |||||||| || |  ||||| ||||| |||||||||||||| || || | ||||||  ||   |  |  || ||  || | |   ||  |   |  | |  | |  |  | || || | | |||| |      |  || | || |||
TCAAATATTTAAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgta-tgcctttttgcaatattatgcagcgagatgttaactgcgact-catgatgtgatc-ttgttcatttatacttcttactttgaactgcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattg--aaacatcattatggtttagtccgcttagtccgctcattctacg-------tttacatgca-tgt-------tcatcttcag------
 |||||||| |||||||| || || ||||| |||||||| ||||||||||| |||||||| ||||| |||||||||||||| |||||||| |||||||||||    | |||   |    | |  |    |        |||  |  | ||| | |  |   |||| |       |||| | | | |||       | |||||||       
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatatacatgtgttcttctcgctagttgtgtcctgaattttctttgtttatttccatacatctatgataaaaatttaaaagtaatgtattaatgttatcttcaattgcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttaca--tgcatgttcatct-tcag------------------
 |||||||| |||||||| || || ||||| |||||||| ||||||||||| |||||||| ||||| |||||||||||||| |||||||| |||||||||||    |  || |||       |    |        |||  |  | ||| | |       ||| | | | |  |  |   | || | | |                   
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatacatgtgttcttcttgctagttgtgtcctgcattttctttgtttatttccaaacacctatgataaaaattaaaaagtaatgtattaatgttatcttttcttgcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaa--cattgaaacatcattatggtttagtccgcttagtc----------cgctcattctacgtttacatgcat--gttcatcttcag--------------
 |||||||| || || || || || ||||| |||||||| ||||||||||| |||||||| ||||| ||||| |||||||| |||||||| || |||||||||     ||| |||    | | ||    || || |     |        |||           |  | || ||| | |   ||||||   | || ||                  
CCAGATATTTGAAGGTCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCAAGTGCATCTCTTGATCGGACAATAAAGgtgtaattatgttcttgttcctggatgtttcttttttaaaaaaaaaaaaaagtaaaaagaaaaactatgatcctatgatataatgcattgatgcaactgttatcatctcttttcag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcat-tatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag
 |||||||| || || || || || ||||| |||||||| ||||||||||| |||||||| ||||| ||||| |||||||| |||||||| || ||||||||      ||| |||            |    |||| | || | |  ||| | | |   || | | | |   | ||             
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttgtttcctatgatataatgca-ttaatgcacctgttgt-cttctcttttcag------------

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcatta--tggtttagtccgcttagtccgctcattctacgtttacatgca-tgttcatcttcag-------------------
|||||| || ||||| ||||| || |||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| || ||||| ||||| |||||        | | |    |||  |  |  |||  ||  ||  |   |  | |  |||   || | || |   ||   | || ||  || |                   
TCAGATCTTTGAGGGCCACTCTCATTATGTGATGCAAGTGACATTTAATCCAAAAGATACCAACACTTTTGCTAGTGCATCTCTGGATCGCACCATTAAGgtatgatctggattttctgttggcaacttgttaactgcatttttttaccaattttgcttcatc-aagtatgagtgtgctatttatgctctgatgatatctccttttccag

upper sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 6
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgttta--catgcatgttcatcttcag----------
|||||| || || || || || ||||| ||||||||||| |||||||||||||||||||||||||| ||||| ||||| ||||| ||||| || |||||||||                |||| |     || ||   | |      |  | |  |      | ||| |  | | |||  |    || |           
TCAGATTTTTGAAGGGCATTCTCACTACGTGATGCAAGTGACATTTAATCCAAAAGACACCAACACCTTTGCAAGTGCCTCCCTCGATCGCACTATAAAGgtgtgagtggaaatgtttcttgataacctgttgtgaacttgaagatgtgtttcaatgtcctaatgttgatccttccatagttgattttattgattgtgtg