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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctcacttgtgtacataagactgatgataatcttccctttcttatcggtatctttcag

Basic information

species Arabidopsis thaliana
transcript AT5G01460.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 12
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaa-tatcgggtttttgcaaataaaggtctcacttgtgtacataag---actgatgataatcttccctttcttatcggtatctttcag--------------------------------------
|||| ||||| || ||||  |||||||| ||||| || || ||||||||||| |||||||||||  |||| || || || || |||||||| ||||||||||| |||  || |  |    | || |   || |  || |||| | |   |     |||   |||  | |    |   ||| ||    |   |                                       
TCTGTGCCACAGCTTTTGCTTATTATGCGCAAGCAACTGCAGCTCAGGAGATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatctagcatgcaaatccatagtcagtttacagttgtttgctcgaataagctggatatatccatgtggtggatattggagcatcaaacttttgaaaatgttctgattttaacatctgaatatgcag

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 10
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggt-ctcacttgtgtacataagactgatgataatct-tccctttcttatcggtatctttcag--------------
|||| ||||| || ||||  || || || ||||| || || ||||| ||||||||||||||||||||||| |||||||| || |||||||| || ||||||| |||              ||| ||  || | |||  || |  |  |      ||   || |   |  |     |||    ||| || |               
TCTGTGCCACGGCTTTTGCCTACTACGCACAAGCAACTGCAGCTCAAGAGATATTTGGCCACACTTTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgttagtctcccaaatgaagagcagatttagttgctctgttttacaggtgttgtagacattattaaatttcgactgtattctgatcctttaccacaaaacatgcag

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctcacttgtgtacataagactgatgataatcttcccttt--cttatcggtatctttcag---------------
|||| ||||| || ||||  |||||||| ||||| || || ||||| ||||| ||||||||||| ||||| |||||||| || |||||||| || ||||||| |||   |   |     || || ||   |  |   ||      ||    |||  |||| |     |||   | ||     ||  || |                
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagttgctttgtttacaggtattg--ctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcag

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA16G19230.1 (Glycine max), 5'ss of exon 11
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctcacttg-tgtacataagactg--atgataatcttccctttcttatcggtatctttcag----------------
||||| |||| |||||||  || ||||||||||| || || || ||||| |||||||||||||||||| |||| ||||| || ||||| ||  | ||||||| ||| |    || ||| | |        | ||| |||| | | | | | ||||     | |||  |||||| ||| | | ||  ||  ||                
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAATATTTGTACAAgtgagtcaatctggatttcttct-------gcctctcttgctctgccttatactggggcaaaaatggtcccttcctt-ttgctaagttgtagatctagagcacacaat

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 12
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctcacttgtgtacataagactgatgataatc--ttcccttt-cttatcggtatctttcag---------
||||| |||| |||||||  || ||||||||||| || || || ||||| |||||||||||||||||| |||| ||||| || ||||| ||  | ||||||| ||| | |||||| |||            |  | ||    || |   |    |  ||  ||  |||| ||| || |   |||  | |            
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAATATTTGTACAAgtgagtca-atcgggatttcttctgcctctcttgctctgccttatactggggcaaaaatggtcccttccttttgctaagttgtagatctagagcacacaat

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA03G07890.1 (Glycine max), 5'ss of exon 12
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctca-----cttgtgtacataagactgatgataatcttcccttt-cttatcggtatctttcag-----
||||| |||| |||||||  || ||||||||||| || || || ||||| |||||||||||||| ||| |||| ||||| || ||||| ||  | ||||||||||| |    || | |||     | |   || |        ||  |   | |   ||   |  ||    |||   ||| ||| |  ||| ||      
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCACAGGAAATATTTGGCCACACCTTGGAGTCTCTTCGTGGAATTAAATATTTGTACAAgtaagtcaagctggatatttttccctcactctccccaaccctctgattgggtgaagatgtgaagtatagaacctaaacttttcgtttacttgcaaattgt

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 12
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctcacttgtgtacataagactgatgataatcttccctttcttatcggtatctttcag-----------------
||||| |||| |||||||  || ||||||||||| || || || ||||| |||||||| ||||||||| |||| ||||| || ||||| ||  | ||||||| ||| |    || || ||     |     ||   ||  ||       |   |   | |||  ||||||  || ||  ||| ||  |                  
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGTCACACTTTGGAGTCTCTTCGAGGAATTAAATATTTGTACAAgtgagtcagtctggattcttctgcctc----tcctgctc-tgccttctggtggggcaaaaatggtcccttcttt-tcactatgttgtaaatctagagcacacaatg

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 12
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggt-ttttgcaaataaaggtctc--acttgtgtacat----aagactgatgataatcttccctttcttatcggtatctttcag----
||||| |||| |||||||  || ||||||||||| || || || ||||| |||||||||||||| ||| | || ||||| || ||||| ||  | ||||||||||| |    || | |||| |         || |  ||   || |       |||||      ||     ||    ||| ||| || ||| ||     
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCACAGGAAATATTTGGCCACACCTTGGAATCTCTTCGTGGAATTAAATATTTGTACAAgtaagtcaagctggatatttttcccgcgctcttccccaacccttggattgggtgaagacgtgaagtatagaacctacacttttcgttaacttgcaaattt

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 12
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctc-acttgtgtacataagactgatgataatcttccctttcttatcggtatctttcag
|||||||||| |||||||| || ||||||||||| || || || ||||| ||||||||||||||  || | || ||    || ||||| ||  | |||||||  |||| |   | |  |  | | | | |  |||   |||   | ||   ||||||  |    |     | |  || | |    | |||
TCTGCGCCACAGCATTTGGTTACTATGCTCAAGCAACTGCTGCACAGGAAATATTTGGCCACACACTGGAATCTCTCAAAGGAATTAAATATTTATACAAgtcggtaacaattgttcatgtctactgatgtcctctgattggagatatggtactgat--ttggttgtgtatgcccattgttgaactgcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|125306325|gb|EL320410.1|EL320410
EST:     CGCGGTATTAAGTACCTCTACAA                         GTACAATGTGTTCCAGATCGGGTTTGTTGTCCTCGCTGGATTGACCTTTTT
genomic: CGCGGTATTAAGTACCTCTACAAgtaagtaata ... tatctttcagGTACAATGTGTTCCAGATCGGGTTTGTTGTCCTCGCTGGATTGACCTTTTT
EST: gi|86085438|gb|DR381197.1|DR381197
EST:     AGTACCTCTACAA                         GTACAATGTGTTCCAGATCGGGTTTGTTGTCCTCGCTGGATTGACCDKTTT
genomic: AGTACCTCTACAAgtaagtaata ... tatctttcagGTACAATGTGTTCCAGATCGGGTTTGTTGTCCTCGCTGGATTGACCTTTTT
EST: gi|86087673|gb|DR383432.1|DR383432
EST:     ATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAA                         GTACAATGTGTTCCAGATCGGGTTTGTTGTCCTCGCTGGATTGACCTTTTT
genomic: ATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaata ... tatctttcagGTACAATGTGTTCCAGATCGGGTTTGTTGTCCTCGCTGGATTGACCTTTTT