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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgtatggttagtaataatgaaatactataaaagagtcttataaagaagattaaaagaggagaatataaagtgtttttgacagctaaaacaatcattcttct...

Basic information

species Arabidopsis thaliana
transcript AT3G19960.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G23660.1 (Glycine max), 5'ss of exon 10
TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgtatggttagtaataatgaaatactataaaagagtcttataaagaagattaaaagaggagaatataaagtgtttttgacagc--taaaacaatcattcttct---
|||||||| ||||||||    ||||||||||||||||||||||| |||||||| || |||||||| ||  || |  ||||||| |||| |  | | ||| || ||     ||   |||  ||||  || |   || ||||    |  | | || |||     |   |  |     | ||||    |    
TCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCACTTAGGGgtaag--tggaaatcatcaagggagatcttaga--cttaataatatttttgaaagttt-gttttttaattgtgccaaatgacgttgtgtgattcatgtagccgac

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA10G43230.1 (Glycine max), 5'ss of exon 8
TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgtatggttagtaataatgaaatactataaaagagtcttataaagaagattaaaagaggagaatataaagtgtttttgacagctaaaacaatcattcttct---
|||||||| ||||||||    ||||||||||||||||||||||| |||||||| || |||||||| ||  || |  | ||||| |||| |   | |  |  | |  | || ||   |     ||||   |    | | | ||| |  |     |  |  ||   |  | | |    | ||        
TCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGGgtaagtggattctt--ttaccttctgtatctgc-caatatatgtatttgttacataggtgggttattggcatactttttatttgagaatggccttgaagaaca

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 10
TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgta-tggttag-taataatgaaat--actataaaagagtcttataaagaagattaaaagaggagaat-ataaagtgtttttgaca--gctaaaacaatcattcttct
|||||||| ||||||||   |||||||||||| ||||||||||| |||||||| || |||||||| ||  | ||  | || || |||| |   ||| | ||||   | |  |||       |    | |   | | ||| |  | ||| |||  | |||| | | |      | |  |  |||||       
TCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGGgtaattactagcttataacctatttcacttctgctaatatatttgttgcatattgattgtggacaattgttaagtctctatattgttgatggagaaatca-------

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 8
TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgta-tggttag-taataatgaaatactataaaagagtcttataaagaagattaaaa--gaggagaat-ataaagtgtttttgacagctaaaacaatcattcttct
|||||||| ||||||||   |||||||||||| |||||||| || |||||||| || |||||||| ||  | ||  | || || |||| |   ||| | ||||   | || |  |     | || ||| |   | |  | |  | ||| |||  | |||| | | |      |  |  |||  |      
TCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCACATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGGgtaattactagcttataacctactatttcacttctg-ctaatatatctgttgcatattgtggataattgttaagtctctatattgtttctatgaatggtga----

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 9
TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgtatggttagtaataatgaaatactataaaagagtcttataaagaagattaaaa--gaggagaatataaagtgtttttgacagctaaaacaatcattcttct
|||||||||||||||||||| ||||| || |||||||||||||| ||||||||||| |||||||| ||| |||| || |||||||||     |  |  |      ||  |||  |    | |  |        |  | |    ||| | |   |      | | | | || ||  |   | |     
TCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAGgttctcatttttttttccttattttattcatttttatgttgtttttcttctatatcatggaaagtcatagaaacatctaataactgaataagggagttga--

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S228_18V6.1 (Physcomitrella patens), 5'ss of exon 9
TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgt-------atggttagtaataatgaaatacta-taaaagagtcttataaagaagattaaaagaggagaatataaagtgtttttgacagctaaaacaatcattcttct-------------------------------
||| |||| || ||    |||||||| ||||| || || |||||||||||||||||||| ||||| ||     | ||  | ||||||       |  ||   |  |||       ||| |  ||   | |  |   |    |  |  |    |  ||||||    || | |  | |    |  |  | | |||                               
TCTCGAGTTGTACAGCAGGCTGAAGGCGAAAGATCTTACCATATTTTTTATCAACTTTGCGCTGGAGCCGACACAGCTTTGAGAGgttgtagaaactgtctcttctaaacctcctctagtttaaccatttcctttcgcttgtctatcggaatgcgtataaatctcttctcattgttgtt-cttttgtgcatctctgactgctcgctgtgtcttcgctggtgtag

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S104_215V6.1 (Physcomitrella patens), 5'ss of exon 9
TCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTC---ACCTGCACTTAGAGgtatggttagtaataatgaaatactataa----aagagtcttataaagaag--attaaa---agaggagaatataaagtgtttttgac-agctaaaacaatcattcttct---------------------
|| ||||| || ||    || ||||| ||||||||||||||  ||||||||||||| |||||||| |||     | ||  ||   |  | | | ||  |     ||      | |      ||   ||| || |  ||   |||| |   | ||  || |    ||| |  |  |  | || |  |    |||  |                       
TCGAGAGTCGTACAGCAAGCAGAAGGTGAAAGGTCATATCACGTTTTTTATCAACTGTGTGCTGGAGCTGATGAATCTTTACGAGgtaggacgttttcttgctgtgtctcggtgtcctttcaattttctaattacaaatttattatatccatagttgattgcctagtctcctccattaactgatgctggaatttgtaaccttatgtgatttttgagcag

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|164150373|gb|ES184898.1|ES184898
EST:     ATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG                         AGAAGCTAAATCTGACAAGCGCCCAT
genomic: ATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAGgtatggttag ... ttgaatgcagAGAAGCTAAATCTGACAAGCGCCCAT