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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctctttgtgtgtttcaattcaatgttgttctctctgcttctctattttgtttcacatgtaatgtttgtgtgcag

Basic information

species Arabidopsis thaliana
transcript AT4G14716.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G14716.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os03g06620.1 (Oryza sativa), 5'ss of exon 2
GAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctctttgtgtgtttcaattcaatgttgttctctctgcttctctattttgtttcacatgtaatgtttgtgtgcag--------------------------------------------
|| || ||  |||||||||| |||||||| ||||||||||| ||||| |||||||| ||    || || ||||| ||  |  |  |   ||||||| |||||       | | | || |  ||  |||| |  ||  || |   |  |||  |  |   | |  || ||      |||                                              
GAGGTCATCGAAGCTTGGTACATGGATGACAGTGAAGAGGACCAGAGGCTTCCTCATCATCGTGAGCCCAAAGAATTCATTCCTCTTAGCAAACTTTCAGgtttgtgcatctat-tgctcaaa--caatatgtttagcttt-tgtaactaactcttagtagaactagtgccaaattgccaaaaaacttgccagatgttaatgtggtgcacaattgatacaccag

upper sequence: AT4G14716.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os10g28350.1 (Oryza sativa), 5'ss of exon 2
GAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctctttgtgtgttt-caattcaatgttgttctctctgcttctctattttgtttcacatgtaatgtttgtgtgcag------------------------------
|| |||||  |||| ||||| ||||||||||| |||||||| ||||| |||||||| |||   || || ||||| ||  |     | || || ||| |||||   |   | |||   |   ||  |     |||| |  |     |||   | |||||     |||  |   |    ||                                
GAGGTGATAGAAGCATGGTACATGGATGATAGCGAAGAGGACCAGAGGCTTCCTCATCACCGCGAACCCAAAGAATTCATTCATGTTGATAAGCTTACAGgtttgcacatatgtagatcagcacattgcctttgtgcattgaagctcttgttattgttgttgttgttgttcatacaagctagtaaaacatgtgtgtttctttaatatctag

upper sequence: AT4G14716.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G28860.2 (Glycine max), 5'ss of exon 2
GAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctctttgtgtgtttcaattcaatgttgttctct-ctgcttctctattttgt-ttcacatgtaatgtttg---tgtgcag--------
|| ||  ||||||| ||||| |||||||||||||| || ||||| ||||| || |||||||| || || || |||||||| ||||||||| ||||||| |||   | ||||  ||  |||  ||    | |  || | | | | ||     ||||    | |||| | || ||||    |||           
GATGTCCTTCAAGCCTGGTACATGGATGATAGTGATGAAGATCAAAGACTCCCCCACCACAAAGAACCCAAGGAGTTTGTCTCGTTGGACCAACTTGCTGgtaagcttcttgttgcattt--atcggttatatttatgtgcagattaagggttttacgctaacatatgatctttgacacgtgttaaattgtag

upper sequence: AT4G14716.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G38940.2 (Glycine max), 5'ss of exon 2
GAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctctttgtgtgtttcaattcaatgttgttctct-ctgcttctctattttgt-ttcacatgtaatgtttgtgtgcag-----------
|||||  ||||||| ||||| |||||||||||||| || ||||| ||||| || |||||||| || || || |||||||| ||||||||| ||||||| |||   | ||||  ||  | |  ||    |||  || | | | | ||      |||    | |||| | || ||||  ||  |           
GAAGTCCTTCAAGCATGGTACATGGATGATAGTGATGAAGATCAAAGACTCCCCCACCACAAAGAACCCAAGGAGTTTGTCTCGTTGGACCAACTTGCTGgtaagcttcttgctgcatct--atcagttgtatttatgtgcagattaagggctttacactaacatctgatctttggctggtgttaaattgtag

upper sequence: AT4G14716.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G13570.1 (Glycine max), 5'ss of exon 1
-GAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctctt--tgtgtgtttcaattcaatgttgttctctctgcttctctattttgtttcacatgtaatgtttg---tgtgcag--------
 ||  |    ||    |   || ||||||||||||| || ||||| | ||| || |||||||| |  ||||| |||||||| ||||||||| ||||||  |||   | ||||  |   |||  |  ||  || ||  | |      |      |||    | |||| | || ||||    |||           
CGACATCTGCCATTAATAACAT-TGGATGATAGTGATGAAGATCAAACACTCCCCCACCACAAAGCACCTAAGGAGTTTGTCTCGTTGGACCAACTTGTTGgtaagcttcttgctacatgtaccggtt--atatttatgtgcaaattaagggttttacactaacatatgatctttgacacgtgttaaattgtag

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|19878312|gb|AU239143.1|AU239143
EST:     TCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAG                         AGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: TCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctct ... ttgtgtgcagAGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
EST: gi|19874934|gb|AU235765.1|AU235765
EST:     TCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAG                         AGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: TCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctct ... ttgtgtgcagAGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
EST: gi|164079174|gb|ES074481.1|ES074481
EST:     GGACAAACTTGCAG                         AGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: GGACAAACTTGCAGgtccccctct ... ttgtgtgcagAGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
EST: gi|124729549|gb|EH820951.1|EH820951
EST:     ATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAG                         AGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: ATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctct ... ttgtgtgcagAGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
EST: gi|152035832|gb|BP862940.2|BP862940
EST:     TCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAG                         AGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: TCCTCACCACAAGGATCCTAAAGAGTTTGTATCGTTGGACAAACTTGCAGgtccccctct ... ttgtgtgcagAGCTGGGAGTACTTAGCTGGAGACTTGATGCTGATAACTATGAAACCGATG