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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGACAGACTCTTCCACAATAATATCTACAATCGATATGTCAAGCGTACTTCCAAGTTCATGGCTCACGATGAAAAGGACTCCTGTAACATCGGCGATCGAgtattttccccttcattttttgaatttgatatacatttgatcaagagctcgaaaatttagggaagctctaggaatatttgaactcaaccattggaagtagacttgcctgtttgttattaggctgctttggaaatgaaacttgatttggttgtttgaaatattag

Basic information

species Arabidopsis thaliana
transcript AT3G18880.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G18880.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os08g27090.1 (Oryza sativa), 5'ss of exon 1
CGACAGACTCTTCCACAATAATATCTACAATCGATATGTCAAGCGTACTTCCAAGTTCATGGCTCACGATGAAAAGGACTCCTGTAACATCGGCGATCGAgt-attttccccttcattttttgaatttgatatacatttgatcaagagctcgaaaatttagggaagctctaggaatatttgaactcaaccattggaagtagacttgcctgtttgttattaggctgctttggaaatgaaacttgatttggttgtttgaaatattag
|||| | ||||||||| | || || ||||| || || |||||||| || |||||||||||||| |||||||| |  ||   ||||||||||||||| || ||   |  ||         | |  | |     |   | || |  ||   |      |||    || |  |    || | |||   | | |||| ||  |                                                                  
CGACCGCCTCTTCCACCACAAGATGTACAACCGCTACGTCAAGCGCACCTCCAAGTTCATGGCGCACGATGAGACCGAGGACTGTAACATCGGCGACCGGgtcggtaaccgagctcccctctccactccccctctctctgtttcagcttttttctttttttttaatccatgctgatttgtga-tgcgagcatttgatttct----------------------------------------------------------------

upper sequence: AT3G18880.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G108008_T01 (Zea mays), 5'ss of exon 1
CGACAGACTCTTCCACAATAATATCTACAATCGATATGTCAAGCGTACTTCCAAGTTCATGGCTCACGATGAAAAGGACTCCTGTAACATCGGCGATCGAgtattttccccttcattttttgaatttgatatacatttgatcaagagctcgaaaatttagggaagctctaggaatatttgaactcaaccattggaagtagacttgcctgtttgttattaggctgctttggaaatgaaacttgatttggttgtttgaaatattag
 ||| | ||||||||| |||| || ||||| || ||||||||||| || || ||||||||||| ||||| ||    |||||||| ||||| ||||| || ||   |      | |||  |  |   |  ||| |      ||        ||   | || ||     ||  ||| ||| |    | |   || ||  | |   || |  ||||||||                                               
GGACCGCCTCTTCCACTATAAGATGTACAACCGCTATGTCAAGCGCACCTCTAAGTTCATGGCACACGACGAGGCTGACTCCTGCAACATTGGCGACCGGgtcggtaa----ttattgctgcatcgtcgtatccgccccttcctcgttctgatgctgtaagg-----ctgtgaaaattgg----cgatgcttagac-tgg---tgtcaatttgttat-----------------------------------------------

upper sequence: AT3G18880.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G177654_T01 (Zea mays), 5'ss of exon 1
CGACAGACTCTTCCACAATAATATCTACAATCGATATGTCAAGCGTACTTCCAAGTTCATGGCTCACGATGAAAAGGACTCCTGTAACATCGGCGATCGAgtattttccccttcattttttgaatttgatatacatttgatcaagagctcgaaaatttagggaagctctaggaatatttgaactcaaccattggaagtagacttgcctgtttgttattaggctgctttggaaatgaaacttgatttggttgtttgaaatattag
 ||| | ||||||||||| ||  | ||||| || || |||||||| || |||||||||||||| ||||| ||  | |||||||| ||||| ||||| || || | |    |||  |  || ||  ||  | | ||     ||        ||   ||| |  | ||| | | |||    ||    |||   || |||   ||| |  |                                                        
GGACCGTCTCTTCCACAACAAGGTATACAACCGCTACGTCAAGCGCACCTCCAAGTTCATGGCACACGACGATGACGACTCCTGCAACATTGGCGACCGGgtctgtaattcttgctccttcga--ttcgtctccaccccttccccgttctga---ttttgtaaggctgtggaaattagcgatgctaacttctgtaag---actggtgt--------------------------------------------------------

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|19799256|gb|AU230546.1|AU230546
EST:     CCAAGTTCATGGCTCACGATGAAAA-GACTCCTGTAACATCGGCGATCGA                         GTGAAATTGGATCCTTCAAGGCCTTTGAGCAAGCATAAGCATTGGATTGTT
genomic: CCAAGTTCATGGCTCACGATGAAAAGGACTCCTGTAACATCGGCGATCGAgtattttccc ... gaaatattagGTGAAATTGGATCCTTCAAGGCCTTTGAGCAAGCATAAGCATTGGATTGTT
EST: gi|19878428|gb|AU239259.1|AU239259
EST:     CCAAGTTCATGGCTCACGATGAAAAGGACTCCTGTAACATCGGCGATCGA                         GTGAAATTGGATCCTTCAAGGCCTTTGAGCAAGCATAAGCATTGGATTGTT
genomic: CCAAGTTCATGGCTCACGATGAAAAGGACTCCTGTAACATCGGCGATCGAgtattttccc ... gaaatattagGTGAAATTGGATCCTTCAAGGCCTTTGAGCAAGCATAAGCATTGGATTGTT