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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACCTCAGCTTCCCCTCTTGCATGAGTGGCATTTCCGCTCTGGACTTGATCGGTACATATGGATAATCGGGATGCTATATGCATACTACCACCCAACTgtaagttcccaatactagaacttcacatcaactctgttcacaaatggttagctcagtgataaagacttaccgtttcatttccttgattatgtatcttatag

Basic information

species Arabidopsis thaliana
transcript AT3G06550.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 5'ss of exon 9
AAAACCTCAGCTTCCCCTCTTGCATGAGTGGCATTTCCGCTCTGGACTTGATCGGTACATATGGATAATCGGGATGCTATATGCATACTACCACCCAACTgtaagttcccaat-actagaacttcacatcaactc--tgttcacaaatggttagctcagtgataaagacttaccgtttcatttccttgattatgtatcttatag
 |||||| | || || |  |||||||||||||||||||| |||||||| ||||| |||||||||||  | |||||| | ||||| || ||||| ||||||||| ||| ||    |   |  ||  || |  ||    ||||||   || | |     | |  |  ||  ||| |     ||||| |  ||    ||     |  
TAAACCTGATCTCCCTCGATTGCATGAGTGGCATTTCCGATCTGGACTGGATCGCTACATATGGATTGTGGGGATGATTTATGCTTATTACCATCCAACTgtatgtttcctgccaactgtgctatacttttacatagtgttcagttatagatgttctatttctttagttttatcaa---atttcataaatcgcataaaagttg-

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G36550.1 (Glycine max), 5'ss of exon 9
AAAACCTCAGCTTCCCCTCTTGCATGAGTGGCATTTCCGCTCTGGACTTGATCGGTACATATGGATAATCGGGATGCTATATGCATACTACCACCCAACTgtaagttcccaatactagaacttcacatcaactctgttca--caaatggttagctcagt------------gataaagactt----accgtttcatttccttgatta-tgtatcttatag----------------------------------------------------------
 ||| | || ||| | | |||||||||||||||||| || || || |||||||| |||||||||||||| || ||| | ||||| || || || ||||||||||||| |  ||  ||    ||   |  || |      |  | ||   |||| ||  |              | |||| |      | |    |  ||  |||||  ||| || |                                                              
CAAATCACATCTTTCTCGCTTGCATGAGTGGCATTTTCGTTCAGGGCTTGATCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcattttatgtttttgaaataagtgaaacaaatctaacatttagatccattctctctgattgagtgaagattctgaagcagaaaaacatctctgatttctgtctcctcctttttttgcttcaatttccctgatttgagtaccttattgtctgtcacatggcattacaag

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA17G04070.1 (Glycine max), 5'ss of exon 9
AAAACCTCAGCTTCCCCTCTTGCATGAGTGGCATTTCCGCTCTGGACTTGATCGGTACATATGGATAATCGGGATGCTATATGCATACTACCACCCAACTgtaagttcccaatactagaacttc-----acatcaactct---gttca-caaatggttagctcagtgataaagacttacc-gtttcatttccttgatta-tgtatcttatag----------------------------------------------------------
 ||| | || ||| | | ||||||||| |||||||| || || || ||||| || |||||||||||||| || ||| | ||||| || || || ||||||||||||| |  ||  ||    ||      |  |||||  |    | || |   |  ||     |||||| |      | | |    || ||  |||||  ||| || | |                                                            
CAAATCACATCTTTCTCGCTTGCATGAATGGCATTTTCGTTCAGGGCTTGACCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcattttatgtttttgaaatatgtcaacatttagatccatcctctctttgatcgagtgatgattctgaagcaggaaaatatctctgatttctgtctcctcttttctttgctttcattttcctgagttgagtaccttattgtctgtcacatggtattataag

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv05s0077g00620.t01 (Vitis vinifera), 5'ss of exon 9
AAAACCTCAGCTTCCCCTCTTGCATGAGTGGCATTTCCGCTCTGGACTTGATCGGTACATATGGATAATCGGGATGCTATATGCATACTACCACCCAACTgtaagttcccaatac--tagaacttcacatcaactctgttcacaaatggttagctcagtgataaagacttaccgtttcatttccttgattatgtatcttatag-------------------
|||||   || || |||  ||||||||||||||||||||||| || |||||||| |||||||||||||| || ||| ||||||| || || || || |||||||| | |||   |  |    |||    || | | | ||||   |    |   |   |  ||   || |   | | || | | |      ||    | |||                    
AAAACAAAAGTTTTCCCGTTTGCATGAGTGGCATTTCCGCTCAGGTCTTGATCGTTACATATGGATAATTGGAATGATATATGCTTATTATCATCCTACTgtaagcttccatgcccttttgccttgttttccaatattttcaagtacaacttatttc-ttttatctacatggagatacagtccttatgaggtgatattaataatgggcatttgttgatgtag

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|125199462|gb|EL214416.1|EL214416
EST:     TGCTATATGCATACTACCACCCAACT                         GTTGAAAGTTGGATGGATAAACTGGAGGAAGCTGAGATGAAATTCAGGGTG
genomic: TGCTATATGCATACTACCACCCAACTgtaagttccc ... tatcttatagGTTGAAAGTTGGATGGATAAACTGGAGGAAGCTGAGATGAAATTCAGGGTG