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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttgattgggctgatgaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAGGGTGATGAAACCCATGTATCAACTCGAGTTATGGGTACTTATGGCTATG

Basic information

species Arabidopsis thaliana
transcript AT5G01020.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G40650.1 (Glycine max), 3'ss of exon 4
gtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttg-attgggctgatgaac--cttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAGGGTGATGAAACCCATGTATCAACTCGAGTTATGGGTACTTATGGCTATG
|||||    |  | ||||     |  ||   |    |||       || ||  |  |    |     |  || ||| |  ||  | || | |    ||   ||  ||||||| || ||||| ||||| ||||||||  |||||||||| ||||| || |||||||||||||||||||| || ||||| |||||||| ||||| ||||
gtaagtttctgatattttgaagttaattaatctgtattgt------attttatggctgttatgatggagttactattttttttcactgtgttcccaaatgactatagGACTATACAGCCAAACTTTCTGATTTTGGACTAGCTAAAGCAGGACCACAAGGTGATGAAACCCATGTATCTACCCGAGTCATGGGTACCTATGGTTATG

upper sequence: AT5G01020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G45200.1 (Glycine max), 3'ss of exon 4
-gtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttgattgggct----gatgaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAGGGTGATGAAACCCATGTATCAACTCGAGTTATGGGTACTTATGGCTATG
 |||||    |  | ||||     |  ||   |   ||||      |    ||  |  |  |    || | |  ||| |  || | || | |     ||||   |  ||||||| || ||||| ||||| ||||||||  |||||||||| ||||| || |||||||||||||||||||| || ||||| |||||||| ||||| ||| 
cgtaagtttctggtattttgaagttaattaatctgtgttgtattttgtggctgttataaaatagttactaat--tatttttttcactgtgttcccaaatgactgtataGGACTATACAGCCAAACTTTCTGATTTTGGACTAGCTAAAGCAGGACCACAAGGTGATGAAACCCATGTATCCACCCGAGTGATGGGTACATATGGTTAT-

upper sequence: AT5G01020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv08s0056g00150.t01 (Vitis vinifera), 3'ss of exon 4
gtaagcagttattcttttctttctgctttgccaaag------ttgctccaagatattg-ggaatacctttccacaactaatatatccttgattgggctgatgaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAGGGTGATGAAACCCATGTATCAACTCGAGTTATGGGTACTTATGGCTATG
||||| ||  |||  ||     |   || |||||        || |||   |  ||   || | |    | |||  ||  | || |||        | | |||| || ||||| || || ||||||||||| || |||||  | || ||||||||||| || |||||||| ||||||||||||||||| || |||||||| ||||| ||||
gtaagtagc-atttcttaaaaccacattagccaagacatttttttctcattgccatcatgggagaatgcttcactcctgtt-taccctgctaatcaccggtgaatctacagGATTATACAGCCAAGCTTTCTGACTTTGGGCTTGCAAAAGCTGGACCACAAGGTGATGAGACCCATGTATCAACTCGTGTAATGGGTACCTATGGTTATG

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|163999159|gb|EL986414.1|EL986414
EST:     CGGTTATTTATAGGGA-TTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTA
genomic: CGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTA
EST: gi|116406701|gb|EG449293.1|EG449293
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCA
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCC-AAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCA
EST: gi|47829930|gb|CK119614.1|CK119614
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|47830578|gb|CK120262.1|CK120262
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|86072121|gb|DR367878.1|DR367878
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|124915591|gb|EH989465.1|EH989465
EST:     CCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: CCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|125009731|gb|EL082000.1|EL082000
EST:     ATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGAACCCCA
genomic: ATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGA-CCCCA
EST: gi|116406702|gb|EG449294.1|EG449294
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|116447999|gb|EG490591.1|EG490591
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGA
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgggaatacctttccacaactaatatatccttgattgggctgatgaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAGGGTGATGAAACCCATGTATCAACTCGAGTTATGGGTACTTATGGCTATG
                                                ccttc  CT-rich tract
                  aactaatatat  TA-rich tract