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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttccctctctcatcagtgtactcttgtctttttcattttatatttattttcccgtcgaataatttatatgcttaaaacacttagaaaattcta...

Basic information

species Arabidopsis thaliana
transcript AT2G29980.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G27190.1 (Glycine max), 5'ss of exon 3
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttcc---ctctctcatcagtgt--actcttgtctttttcattttatatttattttcccgtcgaata-attta--tatgct----taaaacacttagaaaattcta---------------------------------------------------------
|||||| |||||| |||| ||||| |||||||||||||||||||| || || || ||||||||||||||| | ||  |    |   | || | | |  ||  || ||||| |  | |||  |||| |     ||  | || ||||   | || |    || || |   ||   | ||||                                                         
GAGAATTAGCCACAGGACTCACCATCAGAACCATGGCCATGTTGAGAAGGATGAATCATGGGTTCCGgtattattatcagtttgcttaattaatttcaacatttttctttcttctcttaattttaatcagtagttaattagatttgattgtgttccaatagaagaaaaagggtaatctagagatgtgaacttcatgaagtggttcatgattatgtgcctttatgactttatgtcag

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G06950.1 (Glycine max), 5'ss of exon 3
-GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttc---cctctctcatcagtgtactc-ttgtctttttcattttatatttattttcccgtc-gaataatttatatgct--taaaacacttagaaaattcta----------------------------------------------------------
 |||||| |||||| |||| ||||| |||||||||||||||||||| || || || ||||||||||||||| |  |       |   | || | | | | | || | | |||| | |||  |||| |     ||  || |   || | | |   || || |    |     ||||                                                          
GGAGAATTAGCCACAGGACTCACCATCAGAACCATGGCCATGTTGAGAAGGATGAATCATGGGTTCCggtattactatgagtttgcttgattaatttccacattttttctttcttcttaattttaatcagtggttagatttggttgtgttccaatagaagaaaagggggtatctagagagatgtgaatttcatgaagtggttcatgattatgtgtctttatgcctttatgtca

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0004g06720.t01 (Vitis vinifera), 5'ss of exon 4
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttccctctctcatcagtgtactcttgtctttttcattttatatttattttcccgtcgaataatttatatgcttaaaacacttagaaaattcta
|||||| |||||| | || ||||| |||||||| || ||||||||||| || || ||||||||||| ||||  |       |||| |||      | | | | |||  || | |||     ||| ||     ||| ||   |||    ||||   |    |      
GAGAATCAGCCACAGAACTCACCATCAGAACCAAGGTCATGTTGAAAATGATGAATCATGGGTTCCAgtaagatggtttattctcttca------tttggccatttcaatatcatagactcttttcc-----atatttctaatgtcataaacttatgttcag-----

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 4
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatc--tttccctctctcatcagtgtactcttgtctttttcattttatatttattttcccgtcgaataatttatatgcttaaaacacttagaaaattcta
|||||| |||||| | || ||||| || |||||||| ||||||||||| || || |||||||| |||||||     ||     | |||||  ||     || |   ||||  | |||  || |||  || || |||| ||||    ||   |                 
GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggcttattcttgtcatccatgataaattcttcgtttctatgtatcctt-tttagccttctaatactttactctctctcag----------------

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S69_223V6.1 (Physcomitrella patens), 5'ss of exon 3
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatc-tttccctctctcatcagtgtactcttgtctttttcattttatatttattttcccgtcgaataatttata-tgcttaaaacacttagaaaattcta-------------------------------------------------------
| |||| || ||| |||| |||||||| |||||||||||||| || |||||||||||||||   || ||||    ||  |  |      || |   |  ||| |           | ||| | | ||  |      |  | |  ||   |   |  ||| | | |  ||                                                       
GCGAATCAGTCACAGGACCCACCACCAAAACCATGGCCATGTGGAGAACGACGAGTCATGGCACCCTgtaagaacttgacattgctgggagcgggattgtgtttacagtcgcgcctgtttgtatgccgctaactctacgtttggtggcaattgcggttacatagtcgtacagcaatcgacctatgttgctagttgttcctgacactggttgttgactgcctcag

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S98_209V6.1 (Physcomitrella patens), 5'ss of exon 3
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgta-atctttc---cctctctcatcagtgtactct-------tgtctttttcattttatatttattttcccgtcgaataatttatat-gcttaaaacact-tagaaaattcta----
| | || |||||| |||| |||||||||||||| || || || || |||||||||||||||  ||| |||  ||| |     | ||   | ||   || |         ||    | | ||||   |   ||     | | |  || ||  |||  ||  ||  ||| | ||  | | |     
GCGCATTAGCCACAGGACTCACCACCAGAACCACGGGCACGTGGAGAACGACGAGTCATGGCATCCTgtacgtctcttgaatcgctgggagcaaaatagttggtcgaaatgagcatctgatttggaagcaatccagacattgtgtatttcgtattactctaattactgttgatgactattgcag

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S65_6V6.1 (Physcomitrella patens), 5'ss of exon 3
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaa-tctttccctctctcatcagtgtactctt--gtctttttcattttatatttattttcccgtcgaataatttatat-gcttaaaacacttagaaaattcta------------
| | || |||||| | || ||||||||||||||||| ||||| || ||||||||||| |||  |||||||| |   |    |       ||  || |  |  |      |     | |  ||   |  |  || |||| ||| | |  | |    | ||||  |   ||              
GCGGATTAGCCACAGAACTCACCACCAGAACCATGGGCATGTGGAGAACGACGAGTCGTGGCATCCGgtaagtacatttgaccgctgggagcataattcttggagaaagtgggcgtctgatttggtagcattctaatagtttttgttacgtgcttctcttattattgtcggtggtttttgtag

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ23113 (Selaginella moellendorffii), 5'ss of exon 3
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttccctctctcatc--agtgtactcttgtctttttcattttatatttattttcccgtcgaataatttatatgcttaaaacacttagaaaattcta
||| |||||||||||||| || |||||||| || |||||||| || ||||||||||| |||  ||| ||||     |     ||| ||  |||| |  |   |   |||    |||| ||    |   | ||   ||                                
GAGGATAAGCCACCGGACGCATCACCAGAATCACGGCCATGTCGAGAACGACGAGTCCTGGCATCCAgtaagtcgccttaagctcttccaagtgaaaaccatttcgtttttccttatcttacactgttcttcatgtag-------------------------------

upper sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ20170 (Selaginella moellendorffii), 5'ss of exon 3
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttcc--ctctctcatcagtgtactcttgtct-ttttcattttatatttattttcccgtcgaataatttatatgcttaaaacacttagaaaattcta
||| |||||||||||||| || |||||||| || |||||||| || ||||||||||| |||  ||| ||||     |     |||||   |||| |  |   | | ||||  | |||  ||    |   | ||   ||                                
GAGGATAAGCCACCGGACGCATCACCAGAATCACGGCCATGTCGAGAACGACGAGTCCTGGCATCCAgtaagtcgcctgatgctctcgcaagtggaaaccattttgtttttctcttaccttacactgttcttcatgtag-------------------------------

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|124993069|gb|EL065338.1|EL065338
EST:     CACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCG                         TTACCAGAAAGGGTGTACAAGAAATTGCCCCACAGTACTCGGATGCTCAG
genomic: CACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttc ... aacgtttcagTTACCAGAAAGGGTGTACAAGAAATTGCCCCACAGTACTCGGATGCTCAG
EST: gi|125081691|gb|EL142817.1|EL142817
EST:     CCATGTTGAAAACGACGAGTCATGGGTTCCG                         TTACCAGAAAGGGTGTACAAGAAATTGCCCCACAGTACTCGGATGCTCAGA
genomic: CCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatctttc ... aacgtttcagTTACCAGAAAGGGTGTACAAGAAATTGCCCCACAGTACTCGGATGCTCAGA