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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAAAGCAGAGGTTCTCCCTCCAGATACAGATTGCCATCATTTTGTGCTCGAGgtttgatagtttcctactaagatctattcacttgccaggtttatagttattgaatagcgactttcgttttgctgcatccgtag

Basic information

species Arabidopsis thaliana
transcript AT1G06820.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G06820.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G108457_T02 (Zea mays), 5'ss of exon 8
GAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAAAGCAGAGGTTCTCCCTCCAGATACAGATTGCCATCATTTTGTGCTCGAGgtttgatagtttcctactaagatct--attcacttgccaggtttatagttattgaatagcgactttcgttttgctgcatccgtag
 ||    || |||||||| |||||||| ||||||||||| |||||||| ||||||   ||||| ||| | | ||| || ||||| |||||||| || ||||| ||  |   | ||  | ||  ||  | |       |||     |  |  ||| ||  |   |||   | |     ||  | ||
AAAGAATTATGTCAAGGCACCATCATTCCTTTCAATTCATATGGGTGTCAAAGCATCAGTTCTTCCTGCTGGTACTGACTGCCACCATTTTGTACTTGAGgtatgcca---tactgttgagtacttgagtttgacatcagtagcgttttctttgtatgacctgtttgagtctatg--attggcag

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G106531_T01 (Zea mays), 5'ss of exon 8
GAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAAAGCAGAGGTTCTCCCTCCAGATACAGATTGCCATCATTTTGTGCTCGAGgtttg-ata-gtttcctactaagatctattcacttgccaggtttatagttattgaatagcgactttcgttttgctgcatccgtag------------------------------
 ||    ||||| ||||| |||||||| ||||||||||| |||||||| |||||    ||||| ||| | |  || || ||||| |||||| | || ||||| || ||  |||  | |||  ||  | |    ||||   |  | |      | | | || | |||| || |    | |   |                                
AAAGAATTACGTTAAGGCACCATCATTCCTTTCAATTCATATGGGTGTCAAAGCGTCAGTTCTGCCTGCTGGCACTGACTGCCACCATTTTATACTTGAGgtatgcatgtgttcaccactgggaa-tgtggtattgctgagagtttgaca--tcagtggc-attttctttgtataacctgtttgagtctgtattaatcaagtctgtaattggcag

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA02G34060.1 (Glycine max), 5'ss of exon 8
GAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAAAGCAGAGGTTCTCCCTCCAGATACAGATTGCCATCATTTTGTGCTCGAGgt--ttgatagtttcct--actaagatctattcac--ttgccaggtt-tatagttattgaatagcgactttcgttt---tgctgcatccgtag
|||||| || || || |||||||| |||||||||||||||||||| |||||||| |||||| | || ||||||||||| || || ||||||||||| |||||  |||  ||||| ||  |||   ||   || |   |  |   | | || | | | | | || | |  | | |||   ||   | ||  |||
GAAAGTTTATGTTAAAGCTCCATCTTTTCTTTCAATTCACATGGGGGTTAAAGCTGAGGTTTTGCCGCCAGATACAGACTGTCACCATTTTGTGCTTGAGgtagttggaagtttgctcaacttgtattccttaatagtctctgtgctgtagaatgaataattaactatatgcatttccttggcacctctctag

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G10990.1 (Glycine max), 5'ss of exon 8
GAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAAAGCAGAGGTTCTCCCTCCAGATACAGATTGCCATCATTTTGTGCTCGAGgt--ttgatagtttcctactaagatctattcacttgccaggtttatagtt---attgaatagcgactttcgttt---tgctgcatccgtag--------
|||||| || || || |||||||| |||||||||||||||||||| ||||||||||||||| | || ||||||||||| || || ||||| ||||| |||||  |||  ||||| ||   ||  | |||||  |       ||| |   |   |   ||||   |  ||  |||      | |||| | |         
GAAAGTTTATGTTAAAGCTCCATCTTTTCTTTCAATTCACATGGGGGTTAAAGCAGAGGTTTTACCACCAGATACAGACTGTCACCATTTCGTGCTTGAGgtagttggaagtttgct--caacttatattccttaatagtctttgtgccttagaacaaataattaactttatttatgcatttcatctgcacctctctag

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 5'ss of exon 8
GAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAAAGCAGAGGTTCTCCCTCCAGATACAGATTGCCATCATTTTGTGCTCGAGgtttgatagtttcctactaagatctattcacttgccaggtttatagttattgaatagcgactttcgttttgctgcatccgtag------------------------
 || || || || ||||| |||||||||||||| ||||||||||| |||||||| |||||| | || || |||||||||||||| |||||||| || ||||| |  | | || ||||  |  | ||||  |||   |  | |   | ||||    ||  |     |   |  |   | |                            
AAAGGTCTATGTTAAGGCCCCATCATTTCTTTCCATTCACATGGGGGTTAAAGCTGAGGTTTTGCCACCTGATACAGATTGCCACCATTTTGTTCTTGAGgtatt-tgggtttctacatacctttatttccttaaaaattatgaggatattagtcaggcatgactgccatcatatgttcacttaattctcttaccttaattttgtag

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|125005368|gb|EL077637.1|EL077637
EST:     CAGATACAGATTGCCATCATTTTGTGCTCGAG                         GACGATTGGAAGAATCTGGAGGAGCCTTATGGCAGTATTTTCCTCAGCATT
genomic: CAGATACAGATTGCCATCATTTTGTGCTCGAGgtttgatagt ... gcatccgtagGACGATTGGAAGAATCTGGAGGAGCCTTATGGCAGTATTTTCCTCAGCATT