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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttctcag

Basic information

species Arabidopsis thaliana
transcript AT3G11130.1
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GRMZM2G111355_T02 (Zea mays), 5'ss of exon 2
TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttctcag------------------
| |||||||| |||||||||||||||||||| || ||  | || || |||||||||||  | || |||||||| ||  | ||||  |||||||| |||||||  |     ||| |    ||   | ||   | ||    |||       ||     ||      || |  |||  |  |||  |                  
TACTTGATGATGAATGCCCTGAAGATTTTATCAAGGGTTTGATCCTCTCTGTTCGTTCTCTCCTCCCTGTTGAGCCTTTGGTTGATGAATGTGAGAAGAGgtttg---tttttcatatcctcccagtttacttattcacatgagtgaaggtagccaagatgtgcatgtccata-atgctcttggtaaaatcatcattgacag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA14G06340.1 (Glycine max), 5'ss of exon 22
TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttct-cag
|||| ||||| |||||| | ||||||||||| |||||| | || |||||||||||||||||||| || || || |||||||| |  |||||||| ||||||||          |   ||| |   | |  ||  | || ||    | |||||  |||   | |  | ||| | | |  | | |||
TGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTACTGCCAGTGGAGCCCCTTGTGGAGGAATGTGAGAAGAGgtggtgttttccctttgatcctatgtgttattgctttgcat----tcttgtttcttattttatcctgtgtctttttgatatgcag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 22
TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttct-cag
   | ||||| |||||| | ||||||||||| |||||| | || |||||||||||||||||||| || || || |||||||| |  |||||||| ||||||||          |   ||| |   | |  ||  | || ||    | |||||  |||   | |  | ||| | | |  | | |||
---TAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTACTGCCAGTGGAGCCCCTTGTGGAGGAATGTGAGAAGAGGTGgtgttttccctttgatcctatgtgttattgctttgcat----tcttgtttcttattttatcctgtgtctttttgatatgcag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 22
TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgc-tattttgttctttaggctctaatatgtatatgtcttctcag
   | ||||| || ||| | ||||||||||| |||||| | || |||||||||||||||||||| || || || |||||||| |  |||||||| ||||||||          |   ||| | | | |  ||  | ||  | | | |||  |  ||||  || |    | |  || |        
---TAGATGATGAGTGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTACTGCCAGTGGAGCCCCTTGTGGAGGAATGTGAGAAGAGGTGgtgtttgccctttgatcctaagtgttattgctttgcgttcgtgtttcttattttatcctgtggctttttgatatgcag----

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 21
TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttctcag
|  | ||||| |||||||| ||||||||||| |||||| | ||||| ||||||||||| ||||| || || || || ||||| |  || |||||||||||||   | |  || |   ||| |  ||| | ||  | ||    |  || || |  ||   || |  ||  | | |   |   |||
TTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTACTGCCAGTGGAGCCTCTTGTGGAGGAGTGTGAAAAGAGgtagtatctgttctctaatccttcattactttt-tgtgctcacatttctgattatt---ctgtggtacttttcttggtatgcag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 21
TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttctcag
|  | ||||| ||||| || ||||||||||| |||||| | ||||| ||||||||||| ||||| || || || |||||||| |  || ||||| |||||||   | |  || |   ||| |  ||||| ||  | ||   ||  || || |  ||  |   || |  | ||            
TTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTACTGCCAGTGGAGCCCCTTGTGGAGGAGTGTGAGAAGAGgtagtatcttttctctaatcctacatttctttt-tgtgctcgcatttctgattattccgtggtacttggcatgcag--------

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 22
TGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTACTTCCTGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaata-tgtatatgtc-ttctcag
|||| ||||| ||||| || |||||||| || ||||| || ||||||||||| || ||  | ||||||||||| |||||||| |  |||||||| ||||||||      |  |    | | |       ||||   |  |   | |||| | ||| |    || ||  | |  ||||  || ||||
TGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGCTTCCTGTTGAGCCCCTTGTGGATGAATGTGAGAAGAGgtgatgtgtccct----accatatgccctgttcgggttcactttctttt-tacttcaattgcttatgctttgcatgtggttttcag

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|86063114|gb|DR358871.1|DR358871
EST:     TGTTGAACCCCTTGTTGCAGAATGTGAAAAGAG                         AAATCGACTCCGTCTCCTCACTCAGTTCTTGGAGCATCTAGTTAGTGAGGG
genomic: TGTTGAACCCCTTGTTGCAGAATGTGAAAAGAGgtgcgaaccc ... gtcttctcagAAATCGACTCCGTCTCCTCACTCAGTTCTTGGAGCATCTAGTTAGTGAGGG