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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCGCAATGACCATTGTGGAGATAGTTGATGCTCACCAAGGGTTTAAGTTGGTTACAGACAATATCACCACTCGGAAGCCAAAGACACTTTTATGGGTGgtatgtgatttactgtagcttgaaagttattagcttctgtgtcttcttctttaaggacatgaatttcctttttattgatttatggcgtcgcag

Basic information

species Arabidopsis thaliana
transcript AT3G19490.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os09g02214.1 (Oryza sativa), 5'ss of exon 4
TGGCGCAATGACCATTGTGGAGATAGTTGATGCTCACCAAGGGTTTAAGTTGGTTACAGACAATATCACCACTCGGAAGCCAAAGACACTTTTATGGGTGgtatgtgatttactgtagcttgaaagttattagcttctgtgtcttcttctttaaggacatgaatttcctttttattgatttatggcgtcgcag-----------
 || |||||||||||||| ||||| |||||||| || ||||| |||||| | || || ||||||||  | ||||| || ||||  || ||| | ||||||||  ||  |||  | |   |  | |    ||      ||  | ||||  | ||  |  |   |||   |      | |||      | |  |            
CGGTGCAATGACCATTGTTGAGATTGTTGATGCACATCAAGGATTTAAGCTAGTGACTGACAATATATCTACTCGAAATCCAAGAACTCTTCTCTGGGTGgtgagttttttgtttt--ttacatatgctttgatcattgaatattctgttatattggta--gattgtatacgctataattctcaatgacataatttcaatggat

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G40920.1 (Glycine max), 5'ss of exon 4
TGGCGCAATGACCATTGTGGAGATAGTTGATGCTCACCAAGGGTTTAAGTTGGTTACAGACAATATCACCACTCGGAAGCCAAAGACACTTTTATGGGTGgtatgtgattt-actg--tagcttgaaagttattagcttctgtgtcttcttctttaaggacatgaatttcctttttattgatttatggcgtcgcag----
||| |||||||||||||| ||||| ||||||||||| ||||| |||||| ||||||| |||||||| || || || || |||      ||  | ||||||||| ||| ||| ||||  | |  |     || | |       |         |   || | ||   || |   || |  | | |  |   |   |     
TGGTGCAATGACCATTGTTGAGATCGTTGATGCTCATCAAGGATTTAAGCTGGTTACTGACAATATAACAACCCGAAACCCACGCCTTCTCCTCTGGGTGgtaagtgctttcactgctttgtgtctgcattgtcaatcctactagaaatgcttcctagcagattctttgcaaattgagagttcttggaaatttgaattaa

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G26380.1 (Glycine max), 5'ss of exon 4
---TGGCGCAATGACCATTGTGGAGATAGTTGATGCTCACCAAGGGTTTAAGTTGGTTACAGACAATATCACCACTCGGAAGCCAAAGACACTTTTATGGGTGgtatgtgattt------------actgtagcttgaaagttattag----cttctgtgtcttcttctttaaggacatgaatttcctttttattgatttatggc-gtcgcag------------------------------------
   ||| |||||||||||||| ||||| ||||||||||| ||||| |||||| ||||||| | |||||| || || |  || |||      ||| | ||| ||||| ||| |||             ||| |   | ||   || |||      |   |  |   ||||||    |     | ||| |    |||   ||||    || || |                                    
GCTTGGTGCAATGACCATTGTTGAGATTGTTGATGCTCATCAAGGATTTAAGGTGGTTACTGGCAATATAACAACCCAAAACCCACGC---CTTCTCTGGATGgtaagtgctttcattgctttgtgtctgcattgtcaaccctactagaaatgcttcctagcaggttctttgcaaattgagagttcttggaaatttgattatattagttgctgaatgttattgttaaatttggataatgcacacatcag

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G26550.1 (Glycine max), 5'ss of exon 2
TGGCGCAATGACCATTGTGGAGATAGTTGATGCTCACCAAGGGTTTAAGTTGGTTACAGACAATATCACCACTCGGAAGCCAAAGACACTTTTATGGGTGgtatgtgattt-actgtagcttgaaagttattagcttctgtgtcttcttctttaaggacatgaatttcctttttattgatttatggcgtcgcag------
||| |||||||||||||| |||||||||||  ||||   ||| |||||| |||||||||||||||| || || |  || |||      ||  ||||||||||| ||| ||| ||||     | |  |   |    |||    |     ||| |    | ||     |       |       | ||  ||  |       
TGGTGCAATGACCATTGTTGAGATAGTTGACACTCATGGAGGATTTAAGCTGGTTACAGACAATATAACAACCCAAAACCCACGCCTTCTCCTATGGGTGgtaagtgctttcactgctctgtcactgcattgttgttcaacattacagtctatggtcaaatttggatgaaacacacaagagaaggggctcagattcaaga

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv03s0180g00120.t01 (Vitis vinifera), 5'ss of exon 4
TGGCGCAATGACCATTGTGGAGATAGTTGATGCTCACCAAGGGTTTAAGTTGGTTACAGACAATATCACCACTCGGAAGCCAAAGACACTTTTATGGGTGgtatgtgatttact--gtagcttgaaagttatt----agcttctg-tgtctt---cttctttaaggacatgaatttcctttttattgatttatggcgtcgcag
||| |||||||||||||| ||||| ||||||||||| |||||||||||| ||||||| |||||||| || ||||| |||||| | || ||  | ||||||||  ||| |||| |   | ||   || |||  |    | |||| | | | ||   ||| ||   |||||| ||| |     |  |  |||| ||  ||     
TGGTGCAATGACCATTGTTGAGATTGTTGATGCTCATCAAGGGTTTAAGCTGGTTACTGACAATATAACAACTCGCAAGCCACAAACTCTACTTTGGGTGgtgagtgctttatttcatggcaacaatgtttcttttgaacttcagatattttaaccttattcttggacattaatgttgacatggt--atttttgatgttttt-

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|124942606|gb|EL018858.1|EL018858
EST:     TATCACCACTCGGAAGCCAAAGACACTTTTATGGGTG                         GTTGGCTTTGTGACTTTCTTTCTCAGTTCGATTCTAGACAATCTGACCTCT
genomic: TATCACCACTCGGAAGCCAAAGACACTTTTATGGGTGgtatgtgatt ... ggcgtcgcagGTTGGCTTTGTGACTTTCTTTCTCAGTTCGATTCTAGACAATCTGACCTCT