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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCACATCATCAAAGATGTTCCAAATCCGCAACTACGACATATCATACTAGAGAACAATGAGAACAAGCCTGTAACCAATAGCAGAGACACACAAGAGgtaacattagttccttaataggcttaaggaagtgaatcattatcaagagctaatctcatctcatactgtttaaacattgtccttcatatatag

Basic information

species Arabidopsis thaliana
transcript AT1G79270.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os01g48790.3 (Oryza sativa), 5'ss of exon 4
GTGGCACATCATCAAAGATGTTCCAAATCCGCAACTACGACATATCATACTAGAGAACAATGAGAACAAGCCTGTAACCAATAGCAGAGACACACAAGAGgtaaca--ttagttccttaataggcttaaggaagtgaat---cattatcaagagctaatctcatct-catactgtttaaacattgtccttcatatatag-
 |||||||| ||||| ||||| || ||||| ||| | || || || ||||| |||||||| || ||||| ||||| || || ||||| || ||||||||||||     | | || | ||      ||       |  ||   ||| |||   ||| |    | | | | || | || | | |||  || || | | |   
ATGGCACATTATCAAGGATGTGCCTAATCCACAATTTCGCCACATAATACTGGAGAACAACGAAAACAAACCTGTGACAAACAGCAGGGATACACAAGAGgtatttattcaattacctagagattttttatttttttatactcatgatctcaagccatctgcttgtacgtagtattcataaatttcccatcctgtcttcc

upper sequence: AT1G79270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G127780_T02 (Zea mays), 5'ss of exon 7
GTGGCACATCATCAAAGATGTTCCAAATCCGCAACTACGACATATCATACTAGAGAACAATGAGAACAAGCCTGTAACCAATAGCAGAGACACACAAGAGgtaacatt---agttccttaataggcttaaggaagtgaatcattatcaagagctaatctcatctcatactgtttaaacattgtc-cttcatatatag----
 |||||||| ||||| |||||||| ||||| ||| | || ||||| ||  | ||||| |||||||| || ||||| || || ||||| |||||||||||||||    |   | | |||    ||  ||   |   |   | || |  |   | | | ||  ||| |     ||   |  |  |  |   |||| |      
ATGGCACATTATCAAGGATGTTCCCAATCCACAATTTCGCCATATAATTTTGGAGAATAATGAGAATAAACCTGTGACAAACAGCAGGGACACACAAGAGgtattccttccaatacctagcaagagttcttggtattttttatgacaagtggttgagctt-tctaagttaattctcatttcatggcaatatatgtcaggaa

upper sequence: AT1G79270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G17240.2 (Glycine max), 5'ss of exon 7
GTGGCACATCATCAAAGATGTTCCAAATCCGCAACTACGACATATCATACTAGAGAACAATGAGAACAAGCCTGTAACCAATAGCAGAGACACACAAGAGgta-acattagttccttaataggcttaaggaagtgaatcattatcaagagctaatctcatct-catactgttta-aacattgtc--cttcatatatag
 |||||||| || || |||||||||||||| |||||||| || || ||||| ||||| |||||  |||||||||| || ||||| ||||||||||||||||||  |||   |    ||| ||    ||   | |||   | | |     | |  |    | | | ||||  | |   | ||||    | ||  |  ||
ATGGCACATTATAAAGGATGTTCCAAATCCTCAACTACGCCACATAATACTCGAGAATAATGATCACAAGCCTGTCACAAATAGTAGAGACACACAAGAGgtatgcatccatag--taaaagcaacaatctactgacgaagtcttggttgtttcttctgtatgcttactcatcatgtctttgttgattccactttcag

upper sequence: AT1G79270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA15G41960.1 (Glycine max), 5'ss of exon 7
GTGGCACATCATCAAAGATGTTCCAAATCCGCAACTACGACATATCATACTAGAGAACAATGAGAACAAGCCTGTAACCAATAGCAGAGACACACAAGAGgtaacattagttccttaataggcttaaggaagtgaatcattatcaagagctaatctcatctcatactgtttaaacat---tgtccttcatatatag--------
 |||||||| || || |||||||||||||| |||||||| ||||| ||||| ||||| |||||  |||||||||| || |  || |||||||||||||||||    |   ||   || ||     |   |  |        |     || |  |        || || |   ||  |   |||| |  || | |          
ATGGCACATTATAAAGGATGTTCCAAATCCTCAACTACGGCATATAATACTCGAGAATAATGATCACAAGCCTGTTACAAGCAGTAGAGACACACAAGAGgtt---tgcattttctagtaaaaacagaaatctactgagaaagtcttagttgtttcttctgtatgctttactaatgtctatgtcttctatgtttcttttttcag

upper sequence: AT1G79270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv19s0085g01100.t01 (Vitis vinifera), 5'ss of exon 7
GTGGCACATCATCAAAGATGTTCCAAATCCGCAACTACGACATATCATACTAGAGAACAATGAGAACAAGCCTGTAACCAATAGCAGAGACACACAAGAGgta---acattagttccttaataggcttaaggaagtgaat-----cattatcaagagctaatctc-atctcatactgtttaaacattgtccttcatatatag
|||||||||||| |||||||||||||| || ||  | || ||||| ||||| |||||||| || ||||||||||| |||||||||||||||||||| |||||    |||  |     ||      || |  ||| |   |     || | ||  | |||    || | || ||  |||||     |  |||||  |      
GTGGCACATCATAAAAGATGTTCCAAACCCACAGTTGCGGCATATAATACTTGAGAACAACGACAACAAGCCTGTGACCAATAGCAGAGACACACAGGAGgtgcgcacaacaaactgttctctatctcatagaatttgttttcttcaatttcttgtgcttccttccaactaatcttgttttgttgtcatcctttttcag---

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|164113942|gb|ES099782.1|ES099782
EST:     CCTGTAACCAATAGCAGAGACACACAAGAG                         GTGAGGTTGCCTCAAGGGAATGAAGTGTTGAACATCTTTAAG
genomic: CCTGTAACCAATAGCAGAGACACACAAGAGgtaacattag ... tcatatatagGTGAGGTTGCCTCAAGGGAATGAAGTGTTGAACATCTTTAAG