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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGGTGGCGTCGCAAGAGCTCGCGCTTTTGCGAAGAAGTTATCTGATGCACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaaaacctttggaaaatacattttaaccaagtctggattttgacatttaacaacccgtttcatgtag

Basic information

species Arabidopsis thaliana
transcript AT2G44530.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 5'ss of exon 5
TGTTGGTGGCGTCGCAAGAGCTCGCGCTTTTGCGAAGAAGTTATCTGATGCACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaaaacc-----------tttggaaaatacattttaaccaagtctggattttgacatttaa--caacccgtttcatgtag----------------
|||||| || || || || || || |||||||| || ||| |||| ||||||||| ||||||| |||||||||||| | ||||| ||||||||||| |||| |   | | |           | |||   |||||   ||| ||  | || ||      |   ||   |||    ||| |                    
TGTTGGAGGTGTTGCCAGGGCACGTGCTTTTGCCAAAAAGCTATCAGATGCACCTCTAGCAATTGTTGATAAAAGAAGGCATGGACACAATGTTGCCGAGgcaagtagagcattctttgctttctggtttatacaggataaacatttatgaatgcaagtaggaaaaataacttagttcgttctaagttcttctgatcttc

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G12660.1 (Glycine max), 5'ss of exon 5
TGTTGGTGGCGTCGCAAGAGCTCGCGCTTTTGCGAAGAAGTTATCTGATGCACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaaaacctttggaaaatacattttaaccaagtctggattttgacatttaacaacccgtttcatgtag---------------------------------
||||||||| || || ||||| || |||||||| || || ||||||||||| |||||||| || ||||||||||| || |||||||| |||||||| ||||||  |    |||   |   |  | ||||   | ||||  ||| | |   || | |  |  || |    |                                  
TGTTGGTGGTGTTGCCAGAGCACGTGCTTTTGCTAAAAAATTATCTGATGCTCCTTTAGCTATTGTTGATAAAAGGCGCCATGGGCATAATGTTGCTGAGgtatgat--tcttcatatgtttgagtttag--atgtctaaattataatggttcagattcaattgctcaaaataagactcttagtagtatgaaacatacaaaatt

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA03G24280.2 (Glycine max), 5'ss of exon 5
TGTTGGTGGCGTCGCAAGAGCTCGCGCTTTTGCGAAGAAGTTATCTGATGCACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaaaacctttggaaaatacattttaaccaagtctggattttgacatttaacaacccgtttcatgtag---------------------------------
||||||||| || || ||||| || |||||||| || || ||||||||||| |||||||| || ||||||||||| || |||||||| |||||||| ||||||  |    ||| | ||  |  | ||||  |  ||||  ||| | |   || | |  |  || |    |                                  
TGTTGGTGGTGTTGCCAGAGCACGTGCTTTTGCCAAAAAATTATCTGATGCTCCTTTAGCTATTGTTGATAAAAGGCGCCATGGGCATAATGTTGCTGAGgtatgat--tcttcgtaagtttgagtttagac--gtctcaattataatggttcagattcaattactcaaaataagactcttggttgtatgaaattgaaatatac

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv15s0021g00460.t01 (Vitis vinifera), 5'ss of exon 5
TGTTGGTGGCGTCGCAAGAGCTCGCGCTTTTGCGAAGAAGTTATCTGATGCACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaaaacctttggaaaat----------------acattttaaccaagtctggattttgacatttaacaacccgtttcatgtag-------------
||||||||| || || ||||| || |||||||| || || || || ||||||||| |||| || || |||||||| || ||||||||||||||||||||||||  | |   ||    ||||                | |||   |  ||| || | | ||      |  |  |    ||||| | |             
TGTTGGTGGAGTTGCTAGAGCGCGTGCTTTTGCCAAAAAATTGTCAGATGCACCTCTAGCCATTGTGGATAAAAGGCGCCATGGGCACAATGTTGCAGAGgtaacacatatttgaacaaatctaacaatggtttacaatattggtaaaaagcctagttgtttgttgatttcttcatccttcattttggcttattacatct

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ35181 (Selaginella moellendorffii), 5'ss of exon 5
TGTTGGTGGCGTCGCAAGAGCTCGCGCTTTTGCGAAGAAGTTATCTGATGCACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaa--aacctttggaaaatacattttaaccaagtctggattttgacatttaacaacccgtttcatgtag
||||||||| |||||||||||||| || ||||| ||||| || |||||||| ||  | || || || || ||  |  | || || ||||||||| ||||||||||    | ||| |      |   || | |    || | ||||| |  | |  |                 
TGTTGGTGGTGTCGCAAGAGCTCGGGCATTTGCCAAGAAATTGTCTGATGCCCCGCTTGCCATCGTCGACAAGCGCAGACAAGGTCACAATGTTTCAGAGgtagacggcatcctcttctggctgttttctcat-gcgtgttgattt-gctactgcag----------------

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|86075718|gb|DR371475.1|DR371475
EST:     CACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAG                         GTGATGAACTTAATTGGGGATGTTAAAGGGAAAGTAGCCATAATGGTGGAT
genomic: CACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaaaac ... tttcatgtagGTGATGAACTTAATTGGGGATGTTAAAGGGAAAGTAGCCATAATGGTGGAT
EST: gi|125256686|gb|EL270771.1|EL270771
EST:     CACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAG                         GTGATGAACTTAA
genomic: CACCTTTAGCAATAGTTGATAAAAGACGTCATGGGCACAATGTTGCAGAGgtagaaaaac ... tttcatgtagGTGATGAACTTAA